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Dicty_cDB
Contig List | Clone List | cDNA Library List
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
Contig-U01715-1
Contig ID Contig-U01715-1
Contig update 2001. 8.29
Contig sequence 
>Contig-U01715-1 (Contig-U01715-1Q) /CSM_Contig/Contig-U01715-1Q.Seq.d
TAATAATAATAATAATAAAAATAGTAATAATAATAACAATTTTTTACAAA
AAAAATTAAGACAAACAATTATAATAAAATGAATTTCAATTAAATAATAA
TATTATTTTTCAAAATGATGGATAAAGAGATTATATTCAAGTAGAATAAT
AGTAATAATAATAATAGTAATAGTTTAATTGAACAATCATCATTAATGGG
TACTCTTTAAAAAAAAAAAAAAGAAGATACAATATTGGGATGTATTAAAT
GAAACTATATAGGTGTTCAATATACCACATAAACAATGATTATAACTTCA
GATTGATAAACAATCTTATTGTGTCATATGAAATGTCTCAGTATTTGAAT
CTTTTTTTAGCTTTAAATAAATAAATAAAAAAAAAAAAAAATAAAAAAAA
ATAAAAAAAAAAAACAAATTTAGGAAATAAATAATATAAAAGTTTCATAT
TGCCTTTTTTTATTGTAAGAATATCTTTAATTTATTTTGGTTAAATGGTT
TTAGTTGTTTTTAATAATTAAAAAAAAAAAAAAAAAAAACCCTCAATCTC
ATCTTCGATAAATGGATTATCTCGGTTACATTGGGCCGCTTCGACACTCA
ACTTCAATAAATGGATATTCTAGGTTATATTGGGCTGCTTCGAGACTCAA
TTTTGTTCTAAAGCCTTTGGCAATCATTGTAAAATACAGGAAACATGATT
GGGTAACCAAAATCCATCAAATTAATATA----------AATAAATATCA
TTTGATTAAATTGTTAATTCAACTTTTTACAAATAAAAAAAAAAAAAAAA
AAAAAAAAAAAATAGGGTGGGTGTGGGATAAACAATTTTTTTAGCTTCAA
TTTGGTGAACAATCTTATTGAGGGTGATCATTTATCTCATTTTATGAATC
TTTTTTTGCAATATTTTCACATCAACCTTAATTTTTTTAAAAAAATAAAT
AAATAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAATAA
ATAAAAAAAAAAAAAAAAAANACAAATTTAGAAAATAAAAA
Gap gap included
Contig length 1031
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 3789967
End point 3788933
Strand (PLUS/MINUS) MINUS
Number of clones 2
Number of EST 3
Link to clone list U01715
List of clone(s) 

est1=SSF485Z,1,433
est2=SSF405F,284,730
est3=SSF405Z,731,1033
Translated Amino Acid sequence 
******k*****qfftkkiktnnynkmnfn*iiilffkmmdkeiifk*nnsnnnnsnsli
eqsslmgtl*kkkkedtilgcik*nyigvqytt*tmiitsd**tillchmkclsi*iff*
l*ink*kkkkikknkkkkqi*einnikvsyclfll*eyl*filvkwf*lfliikkkkkkn
pqshlr*MDYLGYIGPLRHSTSINGYSRLYWAASRLNFVLKPLAIIVKYRKHDWVTKIHQ
INI---

---NKYHLIKLLIQLFTNKKKKKKKKKIGWVWDKQFF*lqfgeqsy*g*sfisfyesffa
ifshqp*ff*knk*ikkerkkerkkerkk*ikkkkkxtnlenk
Translated Amino Acid sequence (All Frames) 
Frame A:
******k*****qfftkkiktnnynkmnfn*iiilffkmmdkeiifk*nnsnnnnsnsli
eqsslmgtl*kkkkedtilgcik*nyigvqytt*tmiitsd**tillchmkclsi*iff*
l*ink*kkkkikknkkkkqi*einnikvsyclfll*eyl*filvkwf*lfliikkkkkkn
pqshlr*MDYLGYIGPLRHSTSINGYSRLYWAASRLNFVLKPLAIIVKYRKHDWVTKIHQ
INI---

---NKYHLIKLLIQLFTNKKKKKKKKKIGWVWDKQFF*lqfgeqsy*g*sfisfyesffa
ifshqp*ff*knk*ikkerkkerkkerkk*ikkkkkxtnlenk

Frame B:
nnnnnknsnnnnnflqkklrqtiiik*isik**yyfsk*wikrlyssriiviiiiviv*l
nnhh*wvlfkkkkkkiqywdvlneti*vfniphkq*l*lqidkqsycvi*nvsvfesffs
fk*inkkkkk*kkikkknkfrk*ii*kfhiaffycknifnlfwlngfscf**lkkkkkkt
lnlifdkwiisvtlgrfdtqlq*mdilgyigllrdsilf*slwqsl*ntgnmig*pksik
li---

---inii*lnc*fnflqikkkkkkkkk*ggcginnffsfnlvnnliegdhlshfmnlflq
yfhinlnffkkink*rkkerkkerkkernk*kkkkkxqi*kik

Frame C:
iiiiikiviiitifykkn*dkql**nefqlnnniifqndg*rdyiqve*********fn*
tiiingyslkkkkrrynigmy*mklyrcsiyhinndynfrlinnlivsyemsqylnlfla
lnk*ikkkknkkk*kkktnlgnk*yksfilpffivrisliyfg*mvlvvfnn*kkkkkkp
sisssinglsrlhwaastlnfnkwif*vilgcfetqfcskafgnhckiqet*lgnqnpsn
*y---

---*isfd*ivnstfyk*kkkkkkkknrvgvg*tiflasiw*tillrviiylil*iffcn
iftstliflkk*inkerkkerkkerkkeinkkkkkkxkfrk*k
own update 2004. 6. 7
Homology vs CSM-cDNA 
Query= Contig-U01715-1 (Contig-U01715-1Q)
/CSM_Contig/Contig-U01715-1Q.Seq.d
         (1041 letters)

Database: CSM
           8361 sequences; 7,895,291 total letters


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U01715-1 (Contig-U01715-1Q) /CSM_Contig/Conti...   426  e-119
Contig-U13955-1 (Contig-U13955-1Q) /CSM_Contig/Conti...    46  1e-04
Contig-U14461-1 (Contig-U14461-1Q) /CSM_Contig/Conti...    40  0.007
Contig-U12333-1 (Contig-U12333-1Q) /CSM_Contig/Conti...    38  0.026
Contig-U11493-1 (Contig-U11493-1Q) /CSM_Contig/Conti...    38  0.026
Contig-U11333-1 (Contig-U11333-1Q) /CSM_Contig/Conti...    38  0.026
Contig-U10433-1 (Contig-U10433-1Q) /CSM_Contig/Conti...    38  0.026
Contig-U09620-1 (Contig-U09620-1Q) /CSM_Contig/Conti...    38  0.026
Contig-U07866-1 (Contig-U07866-1Q) /CSM_Contig/Conti...    38  0.026
Contig-U14184-1 (Contig-U14184-1Q) /CSM_Contig/Conti...    36  0.10

>Contig-U01715-1 (Contig-U01715-1Q) /CSM_Contig/Contig-U01715-1Q.Seq.d
          Length = 1041

 Score =  426 bits (215), Expect = e-119
 Identities = 245/245 (100%)
 Strand = Plus / Plus

                                                                       
Query: 540 ccctcaatctcatcttcgataaatggattatctcggttacattgggccgcttcgacactc 599
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 540 ccctcaatctcatcttcgataaatggattatctcggttacattgggccgcttcgacactc 599

                                                                       
Query: 600 aacttcaataaatggatattctaggttatattgggctgcttcgagactcaattttgttct 659
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 600 aacttcaataaatggatattctaggttatattgggctgcttcgagactcaattttgttct 659

                                                                       
Query: 660 aaagcctttggcaatcattgtaaaatacaggaaacatgattgggtaaccaaaatccatca 719
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 660 aaagcctttggcaatcattgtaaaatacaggaaacatgattgggtaaccaaaatccatca 719

                                                                       
Query: 720 aattaatatannnnnnnnnnaataaatatcatttgattaaattgttaattcaacttttta 779
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 720 aattaatatannnnnnnnnnaataaatatcatttgattaaattgttaattcaacttttta 779

                
Query: 780 caaat 784
           |||||
Sbjct: 780 caaat 784


 Score =  264 bits (133), Expect = 2e-70
 Identities = 147/154 (95%)
 Strand = Plus / Plus

                                                                       
Query: 223 gaagatacaatattgggatgtattaaatgaaactatataggtgttcaatataccacataa 282
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 223 gaagatacaatattgggatgtattaaatgaaactatataggtgttcaatataccacataa 282

                                                                       
Query: 283 acaatgattataacttcagattgataaacaatcttattgtgtcatatgaaatgtctcagt 342
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 283 acaatgattataacttcagattgataaacaatcttattgtgtcatatgaaatgtctcagt 342

                                             
Query: 343 atttgaatcnnnnnnnagctttaaataaataaat 376
           |||||||||       ||||||||||||||||||
Sbjct: 343 atttgaatctttttttagctttaaataaataaat 376


 Score =  176 bits (89), Expect = 4e-44
 Identities = 89/89 (100%)
 Strand = Plus / Plus

                                                                       
Query: 56  ttaagacaaacaattataataaaatgaatttcaattaaataataatattatttttcaaaa 115
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 56  ttaagacaaacaattataataaaatgaatttcaattaaataataatattatttttcaaaa 115

                                        
Query: 116 tgatggataaagagattatattcaagtag 144
           |||||||||||||||||||||||||||||
Sbjct: 116 tgatggataaagagattatattcaagtag 144


 Score =  167 bits (84), Expect = 4e-41
 Identities = 98/105 (93%)
 Strand = Plus / Plus

                                                                       
Query: 415 caaatttaggaaataaataatataaaagtttcatattgccnnnnnnnattgtaagaatat 474
           ||||||||||||||||||||||||||||||||||||||||       |||||||||||||
Sbjct: 415 caaatttaggaaataaataatataaaagtttcatattgcctttttttattgtaagaatat 474

                                                        
Query: 475 ctttaatttattttggttaaatggttttagttgtttttaataatt 519
           |||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 475 ctttaatttattttggttaaatggttttagttgtttttaataatt 519


 Score =  165 bits (83), Expect = 2e-40
 Identities = 111/125 (88%)
 Strand = Plus / Plus

                                                                       
Query: 813 tagggtgggtgtgggataaacaannnnnnnagcttcaatttggtgaacaatcttattgag 872
           |||||||||||||||||||||||       ||||||||||||||||||||||||||||||
Sbjct: 813 tagggtgggtgtgggataaacaatttttttagcttcaatttggtgaacaatcttattgag 872

                                                                       
Query: 873 ggtgatcatttatctcattttatgaatcnnnnnnngcaatattttcacatcaaccttaat 932
           ||||||||||||||||||||||||||||       |||||||||||||||||||||||||
Sbjct: 873 ggtgatcatttatctcattttatgaatctttttttgcaatattttcacatcaaccttaat 932

                
Query: 933 ttttt 937
           |||||
Sbjct: 933 ttttt 937


 Score = 71.9 bits (36), Expect = 2e-12
 Identities = 36/36 (100%)
 Strand = Plus / Plus

                                               
Query: 173 gtttaattgaacaatcatcattaatgggtactcttt 208
           ||||||||||||||||||||||||||||||||||||
Sbjct: 173 gtttaattgaacaatcatcattaatgggtactcttt 208


 Score = 40.1 bits (20), Expect = 0.007
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                                
Query: 1022 acaaatttagaaaataaaaa 1041
            ||||||||||||||||||||
Sbjct: 1022 acaaatttagaaaataaaaa 1041


>Contig-U13955-1 (Contig-U13955-1Q) /CSM_Contig/Contig-U13955-1Q.Seq.d
          Length = 2125

 Score = 46.1 bits (23), Expect = 1e-04
 Identities = 23/23 (100%)
 Strand = Plus / Plus

                                   
Query: 85   ttcaattaaataataatattatt 107
            |||||||||||||||||||||||
Sbjct: 1975 ttcaattaaataataatattatt 1997


 Score = 36.2 bits (18), Expect = 0.10
 Identities = 18/18 (100%)
 Strand = Plus / Minus

                              
Query: 1024 aaatttagaaaataaaaa 1041
            ||||||||||||||||||
Sbjct: 2092 aaatttagaaaataaaaa 2075


>Contig-U14461-1 (Contig-U14461-1Q) /CSM_Contig/Contig-U14461-1Q.Seq.d
          Length = 386

 Score = 40.1 bits (20), Expect = 0.007
 Identities = 20/20 (100%)
 Strand = Plus / Plus

                               
Query: 86  tcaattaaataataatatta 105
           ||||||||||||||||||||
Sbjct: 234 tcaattaaataataatatta 253


  Database: CSM
    Posted date:  Jun 7, 2004  8:33 AM
  Number of letters in database: 7,895,291
  Number of sequences in database:  8361
  
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: 27,311
Number of Sequences: 8361
Number of extensions: 27311
Number of successful extensions: 4795
Number of sequences better than 10.0: 392
length of query: 1041
length of database: 7,895,291
effective HSP length: 16
effective length of query: 1025
effective length of database: 7,761,515
effective search space: 7955552875
effective search space used: 7955552875
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 2009. 5. 4
Homology vs DNA 
Query= Contig-U01715-1 (Contig-U01715-1Q) /CSM_Contig/Contig-U01715-1Q.Seq.d
         (1041 letters)

Database: ddbj_A
           102,105,510 sequences; 101,790,757,118 total letters

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

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

(C93022) Dictyostelium discoideum slug cDNA, clone SSF485.        305   e-105  4
(C92976) Dictyostelium discoideum slug cDNA, clone SSF405.        115   8e-62  5
(AU072915) Dictyostelium discoideum slug cDNA, clone SSF405.      184   7e-60  2
(AC116924) Dictyostelium discoideum chromosome 2 map 6357117...    50   0.17   1
(FG297596) 1108793288766 New World Screwworm Larvae 9387 EST...    42   0.20   2
(FG295480) 1108770732782 New World Screwworm Larvae 9387 EST...    42   0.21   2
(CU469585) Zebrafish DNA sequence from clone CH73-111M19 in ...    36   0.40   2
(AC221946) Bos taurus clone CH240-377E21, WORKING DRAFT SEQU...    48   0.68   1
(EJ116974) 1092343357227 Global-Ocean-Sampling_GS-27-01-01-1...    38   0.71   2
(FG297390) 1108793286096 New World Screwworm Larvae 9387 EST...    40   0.76   2
(AF357008) Drosophila melanogaster 5.9 kb tandem repeat sequ...    40   1.6    2
(EI859724) CAH1-5D4TV CAA1Ba Cicer arietinum genomic clone C...    36   2.3    2
(BU009351) QGJ10D14.yg.ab1 QG_EFGHJ lettuce serriola Lactuca...    46   2.7    1
(CE033513) tigr-gss-dog-17000348165476 Dog Library Canis lup...    42   5.3    2
(FD072130) CBFH14272.g1 CBFH: Normalized blue catfish cDNA l...    40   7.7    2
(DU255651) 1098574138070 CHORI-243 Ovis aries genomic clone ...    40   7.7    2
(CR925783) Zebrafish DNA sequence from clone ZFOS-855G9 in l...    36   8.3    4
(EV833107) TT1DC52TV Tetrahymena thermophila SB210 cDNA libr...    42   8.6    2
(EC269922) TT1BV81TV Tetrahymena thermophila SB210 cDNA libr...    42   8.8    2
(DX070773) KBrB080E23F KBrB, Brassica rapa BamHI BAC library...    38   9.1    2
(DC225802) Plasmodium berghei strain ANKA cDNA clone:SG00375...    34   9.5    3
(AC146586) Medicago truncatula chromosome 8 clone mth2-71m12...    34   9.9    5

>(C93022) Dictyostelium discoideum slug cDNA, clone SSF485.
          Length = 433

 Score =  305 bits (154), Expect(4) = e-105
 Identities = 154/154 (100%)
 Strand = Plus / Plus


Query: 223 gaagatacaatattgggatgtattaaatgaaactatataggtgttcaatataccacataa 282
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 223 gaagatacaatattgggatgtattaaatgaaactatataggtgttcaatataccacataa 282


Query: 283 acaatgattataacttcagattgataaacaatcttattgtgtcatatgaaatgtctcagt 342
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 283 acaatgattataacttcagattgataaacaatcttattgtgtcatatgaaatgtctcagt 342


Query: 343 atttgaatctttttttagctttaaataaataaat 376
           ||||||||||||||||||||||||||||||||||
Sbjct: 343 atttgaatctttttttagctttaaataaataaat 376

 Score = 58.0 bits (29), Expect(4) = e-105
 Identities = 29/29 (100%)
 Strand = Plus / Plus


Query: 180 tgaacaatcatcattaatgggtactcttt 208
           |||||||||||||||||||||||||||||
Sbjct: 180 tgaacaatcatcattaatgggtactcttt 208

 Score = 56.0 bits (28), Expect(4) = e-105
 Identities = 28/28 (100%)
 Strand = Plus / Plus


Query: 117 gatggataaagagattatattcaagtag 144
           ||||||||||||||||||||||||||||
Sbjct: 117 gatggataaagagattatattcaagtag 144

 Score = 34.2 bits (17), Expect(4) = e-105
 Identities = 17/17 (100%)
 Strand = Plus / Plus


Query: 415 caaatttaggaaataaa 431
           |||||||||||||||||
Sbjct: 415 caaatttaggaaataaa 431

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 815,016,468
Number of extensions: 57056192
Number of successful extensions: 6455829
Number of sequences better than 10.0: 23
Length of query: 1041
Length of database: 101,790,757,118
Length adjustment: 24
Effective length of query: 1017
Effective length of database: 99,340,224,878
Effective search space: 101029008700926
Effective search space used: 101029008700926
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7.18
Homology vs Protein 
Query= Contig-U01715-1 (Contig-U01715-1Q) /CSM_Contig/Contig-U01715-1Q.Seq.d
         (1041 letters)

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

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

 ***** No hits found ******

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: 1,037,790,550
Number of extensions: 14153065
Number of successful extensions: 22807
Number of sequences better than 10.0: 0
Number of HSP's gapped: 22802
Number of HSP's successfully gapped: 0
Length of query: 347
Length of database: 1,051,180,864
Length adjustment: 129
Effective length of query: 218
Effective length of database: 633,664,753
Effective search space: 138138916154
Effective search space used: 138138916154
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: 0.77  gvh: 0.32  alm: 0.40  top: 0.53  tms: 0.00  mit: 0.35  mip: 0.00
 nuc: 0.36  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 

	 80.0 %: nuclear
	 16.0 %: cytoplasmic
	  4.0 %: plasma membrane

>> prediction for Contig-U01715-1 is nuc
VS (DIR, S) 0
VH (FL, L) 0
VF (FL, S) 0
AH (FL, L) 0
AF (FL, S) 0
SL (DIR, L) 0
SS (DIR, S) 2
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