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Dicty_cDB
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U12443-1
Contig ID Contig-U12443-1
Contig update 2002.12.18
Contig sequence 
>Contig-U12443-1 (Contig-U12443-1Q) /CSM_Contig/Contig-U12443-1Q.Seq.d
AAAATAAGCCTAATTATAATTTTATTTATAGAATTATAATTGTTATTTTA
TATATAATAAAATATGTCTTTAGTTTTACCAATACCTGCAGGTGTAAATA
CATTATTAATTACAGAAAATGATTTAGGAAGAGGGTTTAATATTGAAAAT
GGAGAAAATGCCAAAAAAGGTCAAGTTTTCATTTGCGAAAAAGAAAAGAT
CAAATCAACATTTCCATCAACAGATTCAAATAATCTTTCATTAATTAGAG
ATAATGAATCATTAAAAGCTGCATTAGATGTAGGGGGTGAATTAAGTTTA
TCATATGGTTTAATATCAGGTAAAGTAATGGGTAATTATATTGATACAAA
TACTTCAAGTAATGAAAGAATGACATTTTTATACACAAGAAGGATTGTTC
ATAAAATTGTTGAACTTGATTATAAATCAGAAGTTGCAGAAGATATTTCA
AAAATAACAACAGTTGATGCACTCAGATCATTCTATGGTCTTTATTATAT
AAGTAAAATTGAATATGGTGCAATTTTAGATTTAAAAATTACATTAGANN
NNNNNNN----------NNNNNNNNNNCTAAATTTGTATTAACTGATGAA
GTTGCTTTAAAAGTTGGATCGGTATTTTCAGTGGTTAAATTATCATTGGA
AACTAATTTATTAATTAAATTTGAATTTCAAATTTCAAAAACNAGTAATA
CAGGTGCTGATGGATTTGCATTTGTAATTCAAAGTAATTCCAATGATGCA
ATTGGTGGTTGTGGTGGAAGTATTGGGTATAGTACTATTCTTAAGAAGGA
TGGTGCAGTTGCNATCGAATTCGATACTCATAAGAATGATGAAAATAATC
TTGGTGATCCAAATAATAACCATATTTCAATTCAAAAATGTGAAGAAAAT
AGAACNCTTTCATCTTTTCATAGATANTCTTTGGCTTGTGCTGATCCATC
ATTTACAATGAAAGATGGATTAGCACATAAGGTTGATATTCAATTTAATC
AAAAGAATACAACTTTATCTGTTACCTTTGATTCTGTAAAATTAATAAAT
GATACCCATGTTCCAGATTTAATTGGTTTAAAACNAGCATATATTGGTTT
CNCTGCTTCCTCTGGTTCNAGTTATTCNAAACATTCNATTTTAATTTGTG
AGGTTTTTAAACATGAATAATAAAAA
Gap gap included
Contig length 1166
Chromosome number (1..6, M) 3
Chromosome length 6358359
Start point 4085736
End point 4084589
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 2
Link to clone list U12443
List of clone(s) 

est1=VHE669F,1,548
est2=VHE669Z,549,1148
Translated Amino Acid sequence 
kisliiilfiel*llfyi**NMSLVLPIPAGVNTLLITENDLGRGFNIENGENAKKGQVF
ICEKEKIKSTFPSTDSNNLSLIRDNESLKAALDVGGELSLSYGLISGKVMGNYIDTNTSS
NERMTFLYTRRIVHKIVELDYKSEVAEDISKITTVDALRSFYGLYYISKIEYGAILDLKI
TLXXX---

---XXXXKFVLTDEVALKVGSVFSVVKLSLETNLLIKFEFQISKTSNTGADGFAFVIQSN
SNDAIGGCGGSIGYSTILKKDGAVAIEFDTHKNDENNLGDPNNNHISIQKCEENRTLSSF
HRXSLACADPSFTMKDGLAHKVDIQFNQKNTTLSVTFDSVKLINDTHVPDLIGLKXAYIG
FXASSGSSYSKHSILICEVFKHE**k
Translated Amino Acid sequence (All Frames) 
Frame A:
kisliiilfiel*llfyi**NMSLVLPIPAGVNTLLITENDLGRGFNIENGENAKKGQVF
ICEKEKIKSTFPSTDSNNLSLIRDNESLKAALDVGGELSLSYGLISGKVMGNYIDTNTSS
NERMTFLYTRRIVHKIVELDYKSEVAEDISKITTVDALRSFYGLYYISKIEYGAILDLKI
TLXXX---

---XXXXKFVLTDEVALKVGSVFSVVKLSLETNLLIKFEFQISKTSNTGADGFAFVIQSN
SNDAIGGCGGSIGYSTILKKDGAVAIEFDTHKNDENNLGDPNNNHISIQKCEENRTLSSF
HRXSLACADPSFTMKDGLAHKVDIQFNQKNTTLSVTFDSVKLINDTHVPDLIGLKXAYIG
FXASSGSSYSKHSILICEVFKHE**k

Frame B:
k*a*l*fyl*nyncyfiynkicl*fyqylqv*ihy*lqkmi*eeglilkmekmpkkvkfs
fakkkrsnqhfhqqiqiifh*leimnh*klh*m*gvn*vyhmv*yqvk*wviiliqilqv
mke*hfytqeglfikllnliinqklqkifqk*qqlmhsdhsmvfii*vklnmvqf*i*kl
h*xxx---

---xxxlnly*lmkll*kldryfqwlnyhwkliy*lnlnfkfqkxviqvlmdlhl*fkvi
pmmqlvvvvevlgivlflrrmvqlxsnsilirmmkiilviqiitifqfknvkkiexfhlf
idxlwlvlihhlq*kmd*hirlifnlikriqlyllplil*n**mipmfqi*lv*nxhilv
sllplvxvixnixf*fvrflnmnnk

Frame C:
nkpnynfiyriiivilyiikyvfsftntcrckyiinyrk*frkrv*y*kwrkcqkrssfh
lrkrkdqinisinrfk*sfin*r**iikscircrg*ikfiiwfnir*sng*ly*ykyfk*
*kndifihkkdcs*nc*t*l*irscrryfknnns*ctqiilwsllyk*n*iwcnfrfkny
irxxx---

---xxx*icin**scfkswigifsg*iiign*fin*i*isnfknx*yrc*wicicnsk*f
q*cnwwlwwkywv*yys*egwcscxrirys*e**k*sw*sk**pyfnskm*rk*nxfifs
*ixfglc*siiynerwist*g*ysi*skeynficyl*fckink*ypcsrfnwfktsiywf
xcflwfxlfxtfxfnl*gf*t*iik
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U12443-1 (Contig-U12443-1Q)
/CSM_Contig/Contig-U12443-1Q.Seq.d
         (1176 letters)

Database: CSM
           6905 sequences; 5,674,871 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U12443-1 (Contig-U12443-1Q) /CSM_Contig/Conti...  1134  0.0
Contig-U08795-1 (Contig-U08795-1Q) /CSM_Contig/Conti...   101  2e-21
Contig-U06174-1 (Contig-U06174-1Q) /CSM_Contig/Conti...    42  0.001
Contig-U13021-1 (Contig-U13021-1Q) /CSM_Contig/Conti...    40  0.005
Contig-U12753-1 (Contig-U12753-1Q) /CSM_Contig/Conti...    40  0.005
Contig-U10484-1 (Contig-U10484-1Q) /CSM_Contig/Conti...    38  0.021
Contig-U04455-1 (Contig-U04455-1Q) /CSM_Contig/Conti...    38  0.021
Contig-U02384-1 (Contig-U02384-1Q) /CSM_Contig/Conti...    38  0.021
Contig-U01808-1 (Contig-U01808-1Q) /CSM_Contig/Conti...    38  0.021
Contig-U14018-1 (Contig-U14018-1Q) /CSM_Contig/Conti...    36  0.083

>Contig-U12443-1 (Contig-U12443-1Q) /CSM_Contig/Contig-U12443-1Q.Seq.d
          Length = 1176

 Score = 1134 bits (572), Expect = 0.0
 Identities = 599/599 (100%)
 Strand = Plus / Plus

                                                                        
Query: 578  ctaaatttgtattaactgatgaagttgctttaaaagttggatcggtattttcagtggtta 637
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 578  ctaaatttgtattaactgatgaagttgctttaaaagttggatcggtattttcagtggtta 637

                                                                        
Query: 638  aattatcattggaaactaatttattaattaaatttgaatttcaaatttcaaaaacnagta 697
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 638  aattatcattggaaactaatttattaattaaatttgaatttcaaatttcaaaaacnagta 697

                                                                        
Query: 698  atacaggtgctgatggatttgcatttgtaattcaaagtaattccaatgatgcaattggtg 757
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 698  atacaggtgctgatggatttgcatttgtaattcaaagtaattccaatgatgcaattggtg 757

                                                                        
Query: 758  gttgtggtggaagtattgggtatagtactattcttaagaaggatggtgcagttgcnatcg 817
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 758  gttgtggtggaagtattgggtatagtactattcttaagaaggatggtgcagttgcnatcg 817

                                                                        
Query: 818  aattcgatactcataagaatgatgaaaataatcttggtgatccaaataataaccatattt 877
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 818  aattcgatactcataagaatgatgaaaataatcttggtgatccaaataataaccatattt 877

                                                                        
Query: 878  caattcaaaaatgtgaagaaaatagaacnctttcatcttttcatagatantctttggctt 937
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 878  caattcaaaaatgtgaagaaaatagaacnctttcatcttttcatagatantctttggctt 937

                                                                        
Query: 938  gtgctgatccatcatttacaatgaaagatggattagcacataaggttgatattcaattta 997
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 938  gtgctgatccatcatttacaatgaaagatggattagcacataaggttgatattcaattta 997

                                                                        
Query: 998  atcaaaagaatacaactttatctgttacctttgattctgtaaaattaataaatgataccc 1057
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 998  atcaaaagaatacaactttatctgttacctttgattctgtaaaattaataaatgataccc 1057

                                                                        
Query: 1058 atgttccagatttaattggtttaaaacnagcatatattggtttcnctgcttcctctggtt 1117
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1058 atgttccagatttaattggtttaaaacnagcatatattggtttcnctgcttcctctggtt 1117

                                                                       
Query: 1118 cnagttattcnaaacattcnattttaatttgtgaggtttttaaacatgaataataaaaa 1176
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1118 cnagttattcnaaacattcnattttaatttgtgaggtttttaaacatgaataataaaaa 1176


 Score =  961 bits (485), Expect = 0.0
 Identities = 485/485 (100%)
 Strand = Plus / Plus

                                                                       
Query: 64  atgtctttagttttaccaatacctgcaggtgtaaatacattattaattacagaaaatgat 123
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 64  atgtctttagttttaccaatacctgcaggtgtaaatacattattaattacagaaaatgat 123

                                                                       
Query: 124 ttaggaagagggtttaatattgaaaatggagaaaatgccaaaaaaggtcaagttttcatt 183
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 124 ttaggaagagggtttaatattgaaaatggagaaaatgccaaaaaaggtcaagttttcatt 183

                                                                       
Query: 184 tgcgaaaaagaaaagatcaaatcaacatttccatcaacagattcaaataatctttcatta 243
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 184 tgcgaaaaagaaaagatcaaatcaacatttccatcaacagattcaaataatctttcatta 243

                                                                       
Query: 244 attagagataatgaatcattaaaagctgcattagatgtagggggtgaattaagtttatca 303
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 244 attagagataatgaatcattaaaagctgcattagatgtagggggtgaattaagtttatca 303

                                                                       
Query: 304 tatggtttaatatcaggtaaagtaatgggtaattatattgatacaaatacttcaagtaat 363
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 304 tatggtttaatatcaggtaaagtaatgggtaattatattgatacaaatacttcaagtaat 363

                                                                       
Query: 364 gaaagaatgacatttttatacacaagaaggattgttcataaaattgttgaacttgattat 423
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 364 gaaagaatgacatttttatacacaagaaggattgttcataaaattgttgaacttgattat 423

                                                                       
Query: 424 aaatcagaagttgcagaagatatttcaaaaataacaacagttgatgcactcagatcattc 483
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 424 aaatcagaagttgcagaagatatttcaaaaataacaacagttgatgcactcagatcattc 483

                                                                       
Query: 484 tatggtctttattatataagtaaaattgaatatggtgcaattttagatttaaaaattaca 543
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 484 tatggtctttattatataagtaaaattgaatatggtgcaattttagatttaaaaattaca 543

                
Query: 544 ttaga 548
           |||||
Sbjct: 544 ttaga 548


>Contig-U08795-1 (Contig-U08795-1Q) /CSM_Contig/Contig-U08795-1Q.Seq.d
          Length = 1413

 Score =  101 bits (51), Expect = 2e-21
 Identities = 57/59 (96%)
 Strand = Plus / Plus

                                                                      
Query: 484 tatggtctttattatataagtaaaattgaatatggtgcaattttagatttaaaaattac 542
           |||||||||| |||||| |||||||||||||||||||||||||||||||||||||||||
Sbjct: 530 tatggtcttttttatattagtaaaattgaatatggtgcaattttagatttaaaaattac 588


 Score = 61.9 bits (31), Expect = 1e-09
 Identities = 76/91 (83%)
 Strand = Plus / Plus

                                                                       
Query: 219 aacagattcaaataatctttcattaattagagataatgaatcattaaaagctgcattaga 278
           |||||| |||||||| ||  |||||||||  ||| | ||||||||||   |||||||| |
Sbjct: 265 aacagactcaaataaactcacattaattaatgatcaagaatcattaacttctgcattaaa 324

                                          
Query: 279 tgtagggggtgaattaagtttatcatatggt 309
           |||  | ||||||||||||||||||||||||
Sbjct: 325 tgttagtggtgaattaagtttatcatatggt 355


 Score = 48.1 bits (24), Expect = 2e-05
 Identities = 60/72 (83%)
 Strand = Plus / Plus

                                                                       
Query: 68  ctttagttttaccaatacctgcaggtgtaaatacattattaattacagaaaatgatttag 127
           ||||||||||||||||   ||||  || |||||| |||||  |||| || ||||||||||
Sbjct: 111 ctttagttttaccaatttttgcaactgaaaatactttattggttaccgagaatgatttag 170

                       
Query: 128 gaagagggttta 139
           ||||||| ||||
Sbjct: 171 gaagaggtttta 182


 Score = 30.2 bits (15), Expect = 5.1
 Identities = 15/15 (100%)
 Strand = Plus / Plus

                          
Query: 403 aaaattgttgaactt 417
           |||||||||||||||
Sbjct: 449 aaaattgttgaactt 463


>Contig-U06174-1 (Contig-U06174-1Q) /CSM_Contig/Contig-U06174-1Q.Seq.d
          Length = 1231

 Score = 42.1 bits (21), Expect = 0.001
 Identities = 21/21 (100%)
 Strand = Plus / Minus

                                
Query: 657 tttattaattaaatttgaatt 677
           |||||||||||||||||||||
Sbjct: 28  tttattaattaaatttgaatt 8


  Database: CSM
    Posted date:  Jun 9, 2004  7:35 PM
  Number of letters in database: 5,674,871
  Number of sequences in database:  6905
  
Lambda     K      H
    1.37    0.711     1.31 

Gapped
Lambda     K      H
    1.37    0.711     1.31 


Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 21,578
Number of Sequences: 6905
Number of extensions: 21578
Number of successful extensions: 2343
Number of sequences better than 10.0: 267
length of query: 1176
length of database: 5,674,871
effective HSP length: 16
effective length of query: 1160
effective length of database: 5,564,391
effective search space: 6454693560
effective search space used: 6454693560
T: 0
A: 40
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)
dna update 2008.11.30
Homology vs DNA 
Query= Contig-U12443-1 (Contig-U12443-1Q) /CSM_Contig/Contig-U12443-1Q.Seq.d
         (1176 letters)

Database: ddbj_A
           92,845,959 sequences; 95,242,211,685 total letters

Searching..................................................done

                                                             Score    E
Sequences producing significant alignments:                  (bits) Value  N

(BJ439484) Dictyostelium discoideum cDNA clone:ddv40i18, 3' ...  1134   0.0    1
(BJ420841) Dictyostelium discoideum cDNA clone:ddv40i18, 5' ...   674   0.0    2
(BJ326766) Dictyostelium discoideum cDNA clone:dda17n19, 5' ...   101   2e-35  4
(BJ416071) Dictyostelium discoideum cDNA clone:ddv24f21, 5' ...   101   2e-35  4
(BJ416442) Dictyostelium discoideum cDNA clone:ddv26o07, 5' ...   101   2e-35  4
(BJ434084) Dictyostelium discoideum cDNA clone:ddv23h22, 3' ...    62   1e-23  4
(BJ416252) Dictyostelium discoideum cDNA clone:ddv25o11, 5' ...    62   3e-12  3
(BJ410290) Dictyostelium discoideum cDNA clone:ddv11o21, 5' ...    62   4e-12  3
(BJ413656) Dictyostelium discoideum cDNA clone:ddv16d16, 5' ...    62   4e-11  3
(BJ415817) Dictyostelium discoideum cDNA clone:ddv23h22, 5' ...    62   5e-05  1
(CP000942) Ureaplasma parvum serovar 3 str. ATCC 27815, comp...    40   0.002  19
(AC125112) Mus musculus BAC clone RP24-239I23 from chromosom...    36   0.069  7
(AM285320) Spiroplasma citri GII3-3X chromosome, contig Cont...    34   0.13   7
(EI381797) POTCK87TR Solanum tuberosum RHPOTKEY BAC ends Sol...    50   0.19   1
(BU909339) AGENCOURT_10481501 NICHD_XGC_Emb1 Xenopus laevis ...    50   0.19   1
(CR382399) Plasmodium falciparum chromosome 6, complete sequ...    40   0.24   14
(AL928628) Zebrafish DNA sequence from clone DKEY-5G18 in li...    36   0.42   2
(CR854991) Zebrafish DNA sequence *** SEQUENCING IN PROGRESS...    36   0.43   2
(CR847803) Zebrafish DNA sequence from clone DKEY-188C14 in ...    36   0.44   2
(AL844180) Mouse DNA sequence from clone RP23-403A4 on chrom...    42   0.45   5
(AE001392) Plasmodium falciparum 3D7 chromosome 2 section 29...    38   0.48   2
(AL022219) Plasmodium falciparum DNA *** SEQUENCING IN PROGR...    38   0.53   2
(BA000026) Mycoplasma penetrans HF-2 DNA, complete genome.         34   0.67   21
(EK045426) 1092959547682 Global-Ocean-Sampling_GS-31-01-01-1...    44   0.73   2
(CU861518) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    48   0.76   1
(AC195614) Macaca mulatta chromosome UNK clone CH250-74L17, ...    48   0.76   1
(AC194925) Zea mays chromosome 4 clone CH201-175G13; ZMMBBc0...    48   0.76   1
(BH248794) BOGAY84TR BOGA Brassica oleracea genomic clone BO...    48   0.76   1
(CL336556) RPCI44_263M11.r RPCI-44 Sus scrofa genomic clone ...    48   0.76   1
(AC116551) Dictyostelium discoideum chromosome 2 map complem...    34   0.92   10
(AC226018) Solanum lycopersicum chromosome 6 clone C06SLm007...    34   2.2    6
(CU638826) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    36   2.2    6
(CJ803909) Triticum aestivum cDNA clone:whsct2i03, 5' end.         36   2.3    2
(CJ800587) Triticum aestivum cDNA clone:whsct1j16, 5' end.         36   2.7    2
(AL606450) Oryza sativa genomic DNA, chromosome 4, BAC clone...    46   2.7    3
(AC020595) Homo sapiens BAC clone RP11-358M9 from 2, complet...    36   2.8    8
(DQ681865) Synthetic construct Francisella tularensis clone ...    46   3.0    1
(CR382249) Arabidopsis thaliana transposon insertion STS GT_...    46   3.0    1
(CR379680) Arabidopsis thaliana transposon insertion STS GT_...    46   3.0    1
(AC163735) Pan troglodytes BAC clone CH251-576O12 from chrom...    46   3.0    1
(CR855054) Oryza sativa genomic DNA, chromosome 4, BAC clone...    46   3.0    1
(CR855018) Oryza sativa genomic DNA, chromosome 4, BAC clone...    46   3.0    1
(AP008218) Oryza sativa (japonica cultivar-group) genomic DN...    46   3.0    1
(AP008217) Oryza sativa (japonica cultivar-group) genomic DN...    46   3.0    1
(AP008214) Oryza sativa (japonica cultivar-group) genomic DN...    46   3.0    1
(AP008213) Oryza sativa (japonica cultivar-group) genomic DN...    46   3.0    1
(AP008212) Oryza sativa (japonica cultivar-group) genomic DN...    46   3.0    1
(AP008211) Oryza sativa (japonica cultivar-group) genomic DN...    46   3.0    1
(AP008210) Oryza sativa (japonica cultivar-group) genomic DN...    46   3.0    1
(AP005719) Oryza sativa Japonica Group genomic DNA, chromoso...    46   3.0    1
(AP004742) Oryza sativa Japonica Group genomic DNA, chromoso...    46   3.0    1
(AP004694) Oryza sativa Japonica Group genomic DNA, chromoso...    46   3.0    1
(AP004681) Oryza sativa Japonica Group genomic DNA, chromoso...    46   3.0    1
(AP003684) Oryza sativa Japonica Group genomic DNA, chromoso...    46   3.0    1
(AL954853) Oryza sativa chromosome 12, . BAC OSJNBb0071I17 o...    46   3.0    1
(AC136905) Oryza sativa Japonica Group chromosome 11 clone O...    46   3.0    1
(AC136522) Oryza sativa Japonica Group chromosome 5 clone OS...    46   3.0    1
(AC009606) Arabidopsis thaliana chromosome III BAC F22F7 gen...    46   3.0    1
(EA694207) Sequence 73086 from patent US 7365185.                  46   3.0    1
(EA692336) Sequence 71215 from patent US 7365185.                  46   3.0    1
(DD148077) Method for testing of predisposition to hypertens...    46   3.0    1
(EU326312) Homo sapiens nuclear receptor subfamily 3, group ...    46   3.0    1
(AC093678) Homo sapiens BAC clone RP11-635A1 from 4, complet...    46   3.0    1
(AC008756) Homo sapiens chromosome 16 clone CTD-3028M10, com...    46   3.0    1
(AC155426) Zea mays strain B73 clone ZMMBBb0229K15, *** SEQU...    46   3.0    1
(AC027537) Homo sapiens chromosome 4 clone RP11-149D1 map 4,...    46   3.0    1
(CR855034) Oryza sativa genomic DNA, chromosome 4, BAC clone...    46   3.0    1
(AC232122) Solanum tuberosum strain Diploid genotype RH89-03...    46   3.0    1
(AC181096) Strongylocentrotus purpuratus clone R3-3045G22, W...    46   3.0    1
(AC179257) Strongylocentrotus purpuratus clone R3-42M6, WORK...    46   3.0    1
(AC168405) Strongylocentrotus purpuratus clone R3-4002F8, WO...    46   3.0    1
(AC168367) Strongylocentrotus purpuratus clone R3-4013M15, W...    46   3.0    1
(AC024348) Homo sapiens chromosome 4 clone RP11-524H18 map 4...    46   3.0    1
(AZ521769) RPCI-11-269E10.TJB RPCI-11 Homo sapiens genomic c...    46   3.0    1
(AZ046009) nbeb0088H19f CUGI Rice BAC Library (EcoRI) Oryza ...    46   3.0    1
(AQ962259) LERGE31TF LERG Arabidopsis thaliana genomic clone...    46   3.0    1
(AQ550032) RPCI-11-416I23.TJ RPCI-11 Homo sapiens genomic cl...    46   3.0    1
(EK140851) 1095454110608 Global-Ocean-Sampling_GS-31-01-01-1...    46   3.0    1
(EI428253) PV_GBa0019E01.r PV_GBa Phaseolus vulgaris genomic...    46   3.0    1
(DX411851) SOYFL25TH LargeInsertSoybeanGenLibBuild4 Glycine ...    46   3.0    1
(AL348400) Tetraodon nigroviridis genome survey sequence T7 ...    46   3.0    1
(CW794721) WiscDsLox368C07 Arabidopsis thaliana T-DNA insert...    46   3.0    1
(CL831441) OR_CBa0053N10.f OR_CBa Oryza rufipogon genomic cl...    46   3.0    1
(BH790332) SALK_056842.48.75.x Arabidopsis thaliana TDNA ins...    46   3.0    1
(BH783940) fzmb013f014f10k0 fzmb filtered library Zea mays g...    46   3.0    1
(EH230514) JGI_ACAC6177.fwd ACAC Phakopsora pachyrhizi TW72-...    46   3.0    1
(DB697730) Solanum lycopersicum cDNA, clone: LEFL1061DC05, 5...    46   3.0    1
(FE183318) LV_NC_RA31G21f Litopenaeus vannamei nerve cord cD...    46   3.0    1
(CP000915) Francisella tularensis subsp. mediasiatica FSC147...    46   3.0    1
(CP000803) Francisella tularensis subsp. holarctica FTNF002-...    46   3.0    1
(CP000608) Francisella tularensis subsp. tularensis WY96-341...    46   3.0    1
(CP000439) Francisella tularensis subsp. novicida U112, comp...    46   3.0    1
(CP000437) Francisella tularensis subsp. holarctica OSU18, c...    46   3.0    1
(AM286280) Francisella tularensis subsp. tularensis strain F...    46   3.0    1
(AM233362) Francisella tularensis subsp. holarctica LVS comp...    46   3.0    1
(AJ749949) Francisella tularensis subsp. tularensis SCHU S4 ...    46   3.0    1
(AC006710) Caenorhabditis elegans clone Y119C1AA, *** SEQUEN...    36   3.0    6
(EK350601) 1095467926527 Global-Ocean-Sampling_GS-31-01-01-1...    44   3.3    2
(AC098685) Mus musculus clone ct7-393l21, complete sequence.       42   3.5    2
(DB771471) Apis mellifera head cDNA, RIKEN full-length enric...    30   3.8    4

>(BJ439484) Dictyostelium discoideum cDNA clone:ddv40i18, 3' end,
            single read.
          Length = 600

 Score = 1134 bits (572), Expect = 0.0
 Identities = 599/599 (100%)
 Strand = Plus / Minus


Query: 578  ctaaatttgtattaactgatgaagttgctttaaaagttggatcggtattttcagtggtta 637
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 600  ctaaatttgtattaactgatgaagttgctttaaaagttggatcggtattttcagtggtta 541


Query: 638  aattatcattggaaactaatttattaattaaatttgaatttcaaatttcaaaaacnagta 697
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 540  aattatcattggaaactaatttattaattaaatttgaatttcaaatttcaaaaacnagta 481


Query: 698  atacaggtgctgatggatttgcatttgtaattcaaagtaattccaatgatgcaattggtg 757
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 480  atacaggtgctgatggatttgcatttgtaattcaaagtaattccaatgatgcaattggtg 421


Query: 758  gttgtggtggaagtattgggtatagtactattcttaagaaggatggtgcagttgcnatcg 817
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 420  gttgtggtggaagtattgggtatagtactattcttaagaaggatggtgcagttgcnatcg 361


Query: 818  aattcgatactcataagaatgatgaaaataatcttggtgatccaaataataaccatattt 877
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 360  aattcgatactcataagaatgatgaaaataatcttggtgatccaaataataaccatattt 301


Query: 878  caattcaaaaatgtgaagaaaatagaacnctttcatcttttcatagatantctttggctt 937
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 300  caattcaaaaatgtgaagaaaatagaacnctttcatcttttcatagatantctttggctt 241


Query: 938  gtgctgatccatcatttacaatgaaagatggattagcacataaggttgatattcaattta 997
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 240  gtgctgatccatcatttacaatgaaagatggattagcacataaggttgatattcaattta 181


Query: 998  atcaaaagaatacaactttatctgttacctttgattctgtaaaattaataaatgataccc 1057
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 180  atcaaaagaatacaactttatctgttacctttgattctgtaaaattaataaatgataccc 121


Query: 1058 atgttccagatttaattggtttaaaacnagcatatattggtttcnctgcttcctctggtt 1117
            ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 120  atgttccagatttaattggtttaaaacnagcatatattggtttcnctgcttcctctggtt 61


Query: 1118 cnagttattcnaaacattcnattttaatttgtgaggtttttaaacatgaataataaaaa 1176
            |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 60   cnagttattcnaaacattcnattttaatttgtgaggtttttaaacatgaataataaaaa 2

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 1,304,090,834
Number of extensions: 84065208
Number of successful extensions: 6779082
Number of sequences better than 10.0: 143
Length of query: 1176
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 1152
Effective length of database: 97,308,875,965
Effective search space: 112099825111680
Effective search space used: 112099825111680
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7. 3
Homology vs Protein 
Query= Contig-U12443-1 (Contig-U12443-1Q) /CSM_Contig/Contig-U12443-1Q.Seq.d
         (1176 letters)

Database: nrp_B
           3,236,559 sequences; 1,051,180,864 total letters

Searching..................................................done

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC116305_58(AC116305|pid:none) Dictyostelium discoideum chromoso...    85   6e-15
(Q58791) RecName: Full=Uncharacterized protein MJ1396;  &C64474(...    57   1e-06
CP001390_3743(CP001390|pid:none) Geobacter sp. FRC-32, complete ...    47   0.001
AM263198_791(AM263198|pid:none) Listeria welshimeri serovar 6b s...    44   0.014
CR954201_440(CR954201|pid:none) Ostreococcus tauri strain OTTH05...    41   0.072
CP000581_458(CP000581|pid:none) Ostreococcus lucimarinus CCE9901...    39   0.27
CP001016_3180(CP001016|pid:none) Beijerinckia indica subsp. indi...    39   0.36
(Q8MP30) RecName: Full=Uncharacterized histidine-rich protein DD...    39   0.47
CP001016_3177(CP001016|pid:none) Beijerinckia indica subsp. indi...    38   0.61
AF009521_1(AF009521|pid:none) Mus spretus sex determining protei...    37   1.0
(Q62563) RecName: Full=Sex-determining region Y protein; AltName...    37   1.0
CP001160_75(CP001160|pid:none) Thalassiosira pseudonana CCMP1335...    37   1.8
AF238899_1(AF238899|pid:none) Bacillus anthracis isolate BA1035 ...    36   3.0
CP000227_4449(CP000227|pid:none) Bacillus cereus Q1, complete ge...    36   3.0
(Q5UPG1) RecName: Full=Putative BTB/POZ domain-containing protei...    35   3.9
AF238894_1(AF238894|pid:none) Bacillus anthracis isolate A24 Vrr...    35   4.0
(Q25802) RecName: Full=DNA-directed RNA polymerase subunit beta'...    35   4.0
(P04929) Histidine-rich glycoprotein precursor.  &KGZQHL(A22692)...    35   4.0
CP001100_924(CP001100|pid:none) Chloroherpeton thalassium ATCC 3...    35   5.2
AC144564_13(AC144564|pid:none) Medicago truncatula clone mth2-17...    35   5.2
AE016877_4531(AE016877|pid:none) Bacillus cereus ATCC 14579, com...    35   5.2
AY830454_1(AY830454|pid:none) Petromyzon marinus SoxF (SoxF) mRN...    35   5.2
CU469464_452(CU469464|pid:none) Candidatus Phytoplasma mali stra...    35   5.2
AM746676_2192(AM746676|pid:none) Sorangium cellulosum 'So ce 56'...    35   6.7
AX647833_1(AX647833|pid:none) Sequence 2025 from Patent EP1270724.     35   6.8
AF238896_1(AF238896|pid:none) Bacillus anthracis isolate BA1015 ...    35   6.8
AF238887_1(AF238887|pid:none) Bacillus cereus strain ATCC 31293 ...    35   6.8
CP001215_4853(CP001215|pid:none) Bacillus anthracis str. CDC 684...    35   6.8
AF238890_1(AF238890|pid:none) Bacillus anthracis isolate MOZ-3 V...    35   6.8
AF238893_1(AF238893|pid:none) Bacillus anthracis isolate VOLLUM ...    35   6.8
AF238889_1(AF238889|pid:none) Bacillus anthracis isolate 2PT Vrr...    35   6.8
AL031745_47(AL031745|pid:none) Plasmodium falciparum DNA from MA...    34   8.8
EF026246_1(EF026246|pid:none) Steinernema carpocapsae Ahn-4 mRNA...    34   8.8
AE014297_1244(AE014297|pid:none) Drosophila melanogaster chromos...    34   8.8

>AC116305_58(AC116305|pid:none) Dictyostelium discoideum chromosome 2
            map 1005175-1418323 strain AX4, complete sequence.
          Length = 307

 Score = 84.7 bits (208), Expect = 6e-15
 Identities = 55/171 (32%), Positives = 93/171 (54%)
 Frame = +1

Query: 589  LTDEVALKVGSVFSVVKLSLETNLLIKFEFQISKTSNTGADGFAFVIQSNSNDAIGGCGG 768
            LT  +  +VGS++S  K++++     +F F +S+    GADGFAF++Q+N  + I   GG
Sbjct: 123  LTPSLQGQVGSIWSRKKVTIDNGFQCEFTFNVSRR---GADGFAFILQTNGINEIKQIGG 179

Query: 769  SIGYSTILKKDGAVAIEFDTHKXXXXXXXXXXXXHISIQKCEENRTLSSFHRXSLACADP 948
             +GY+ +   +G +AIEFDT              HISIQ+   N++LS+ H+ SL  +
Sbjct: 180  ELGYNQM--ANGVIAIEFDT--FHNREMGDPYYNHISIQRPTPNQSLSTNHQYSLG-SYH 234

Query: 949  SFTMKDGLAHKVDIQFNQKNTTLSVTFDSVKLINDTHVPDLIGLKXAYIGF 1101
            S ++ +G+  +V I +N +N  + +  D   ++    +P     K AY GF
Sbjct: 235  SNSINNGVDQRVKIIYNSENKEIEILIDGTIILKGIKIPYTFP-KYAYFGF 284

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3236559
Number of Hits to DB: 1,482,363,135
Number of extensions: 29607034
Number of successful extensions: 65218
Number of sequences better than 10.0: 34
Number of HSP's gapped: 64235
Number of HSP's successfully gapped: 44
Length of query: 392
Length of database: 1,051,180,864
Length adjustment: 131
Effective length of query: 261
Effective length of database: 627,191,635
Effective search space: 163697016735
Effective search space used: 163697016735
Neighboring words threshold: 12
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 32 (16.9 bits)
PSORT 

 psg: 0.91  gvh: 0.50  alm: 0.35  top: 0.27  tms: 0.00  mit: 0.25  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.20  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 0.00  tyr: 0.00  leu: 0.00  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 32.0 %: cytoplasmic
	 28.0 %: nuclear
	 24.0 %: extracellular, including cell wall
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system
	  4.0 %: endoplasmic reticulum

>> prediction for Contig-U12443-1 is cyt
VS (DIR, S) 0
VH (FL, L) 1
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 0
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 0
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0