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Dicty_cDB
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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-U14830-1
Contig ID Contig-U14830-1
Contig update 2002.12.18
Contig sequence 
>Contig-U14830-1 (Contig-U14830-1Q) /CSM_Contig/Contig-U14830-1Q.Seq.d
TTCAAATATAGTTGGATTAATAGCAAATTCAATTGAAATTGATAGTTGTT
CAATGGTGAAAGATCATTCAATAACAATTGGTCAATTGGTTGTATTCTCA
TCATTAAAGGTCTGTTCAAGTCTTGATATTAAAATCACCAATTTAGGACT
TTCACCATCCAATACCATTGCTGAATTGAAAACAACTAGAAATATTGATT
TACAATTTTCAAATGGTTTTTCAGGTTCAATCTCAATTGATTCACCAAGT
GTAACATTAGATCCAGGTTGTACAACTACAATTTCCGGTCAAACTACTAC
TGGTACTTGTAATGGTGGTTCAAGCTCAAAACTATCAATATCAGCAGGTA
ATAGTGCGATTGTTAGAAATCTTGAAATAACATGCCCAATTGATAATAGT
TGGAGAGTTACACCAGCATCAAGTGGACCTTCAACAAATTCACCATCAAT
TTTCACAACTCAACCTGCTACTAATTTTAATTATGGAAAATCAAATTTGG
TTTTCATGGCACAATGGAATAATGTTAGTTTACTCGATGGTCCAGTTGAA
AACTCATTCAATATAACTTATGTTACATGGAGTCCAAATAGTCATTGGTT
AGTTTCAAAAGATCCTTCACCAACTTTAAAATCTGGTGTAAATTATGAAT
TTAGTCTTGAGCTTTTATNNNNNNNNN
Gap no gap
Contig length 677
Chromosome number (1..6, M) 4
Chromosome length 5430582
Start point 5021454
End point 5020787
Strand (PLUS/MINUS) MINUS
Number of clones 1
Number of EST 1
Link to clone list U14830
List of clone(s) 

est1=VHJ621F,1,668
Translated Amino Acid sequence 
SNIVGLIANSIEIDSCSMVKDHSITIGQLVVFSSLKVCSSLDIKITNLGLSPSNTIAELK
TTRNIDLQFSNGFSGSISIDSPSVTLDPGCTTTISGQTTTGTCNGGSSSKLSISAGNSAI
VRNLEITCPIDNSWRVTPASSGPSTNSPSIFTTQPATNFNYGKSNLVFMAQWNNVSLLDG
PVENSFNITYVTWSPNSHWLVSKDPSPTLKSGVNYEFSLELLXXX
Translated Amino Acid sequence (All Frames) 
Frame A:
fkyswinskfn*n**lfngersfnnnwsigciliikglfks*y*nhqfrtftiqyhc*ie
nn*ky*ftifkwffrfnln*ftkcnirsrlynynfrsnyywyl*wwfklktinisr**cd
c*ks*nnmpn***lesytsikwtfnkftinfhnstcy*f*lwkikfgfhgtme*c*ftrw
ss*kliqynlcymesk*slvsfkrsftnfkiwckl*i*s*afxxx


Frame B:
SNIVGLIANSIEIDSCSMVKDHSITIGQLVVFSSLKVCSSLDIKITNLGLSPSNTIAELK
TTRNIDLQFSNGFSGSISIDSPSVTLDPGCTTTISGQTTTGTCNGGSSSKLSISAGNSAI
VRNLEITCPIDNSWRVTPASSGPSTNSPSIFTTQPATNFNYGKSNLVFMAQWNNVSLLDG
PVENSFNITYVTWSPNSHWLVSKDPSPTLKSGVNYEFSLELLXXX


Frame C:
qi*ld**qiqlklivvqw*kiiq*qlvnwlyshh*rsvqvlilkspi*dfhhpiplln*k
qleiliynfqmvfqvqsqlihqv*h*iqvvqlqfpvklllvlvmvvqaqnyqyqqvivrl
leilk*haqliivgelhqhqvdlqqihhqfsqlnlllilimenqiwfswhngimlvysmv
qlkthsi*lmlhgvqivig*fqkilhql*nlv*imnlvlsfyxxx
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U14830-1 (Contig-U14830-1Q)
/CSM_Contig/Contig-U14830-1Q.Seq.d
         (677 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U14830-1 (Contig-U14830-1Q) /CSM_Contig/Conti...  1324  0.0
Contig-U13731-1 (Contig-U13731-1Q) /CSM_Contig/Conti...    64  2e-10
Contig-U09533-1 (Contig-U09533-1Q) /CSM_Contig/Conti...    36  0.047
Contig-U14678-1 (Contig-U14678-1Q) /CSM_Contig/Conti...    34  0.19
Contig-U14129-1 (Contig-U14129-1Q) /CSM_Contig/Conti...    34  0.19
Contig-U13354-1 (Contig-U13354-1Q) /CSM_Contig/Conti...    34  0.19
Contig-U12492-1 (Contig-U12492-1Q) /CSM_Contig/Conti...    34  0.19
Contig-U11582-1 (Contig-U11582-1Q) /CSM_Contig/Conti...    34  0.19
Contig-U11419-1 (Contig-U11419-1Q) /CSM_Contig/Conti...    34  0.19
Contig-U11212-1 (Contig-U11212-1Q) /CSM_Contig/Conti...    34  0.19

>Contig-U14830-1 (Contig-U14830-1Q) /CSM_Contig/Contig-U14830-1Q.Seq.d
          Length = 677

 Score = 1324 bits (668), Expect = 0.0
 Identities = 668/668 (100%)
 Strand = Plus / Plus

                                                                       
Query: 1   ttcaaatatagttggattaatagcaaattcaattgaaattgatagttgttcaatggtgaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ttcaaatatagttggattaatagcaaattcaattgaaattgatagttgttcaatggtgaa 60

                                                                       
Query: 61  agatcattcaataacaattggtcaattggttgtattctcatcattaaaggtctgttcaag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  agatcattcaataacaattggtcaattggttgtattctcatcattaaaggtctgttcaag 120

                                                                       
Query: 121 tcttgatattaaaatcaccaatttaggactttcaccatccaataccattgctgaattgaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tcttgatattaaaatcaccaatttaggactttcaccatccaataccattgctgaattgaa 180

                                                                       
Query: 181 aacaactagaaatattgatttacaattttcaaatggtttttcaggttcaatctcaattga 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aacaactagaaatattgatttacaattttcaaatggtttttcaggttcaatctcaattga 240

                                                                       
Query: 241 ttcaccaagtgtaacattagatccaggttgtacaactacaatttccggtcaaactactac 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 ttcaccaagtgtaacattagatccaggttgtacaactacaatttccggtcaaactactac 300

                                                                       
Query: 301 tggtacttgtaatggtggttcaagctcaaaactatcaatatcagcaggtaatagtgcgat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 tggtacttgtaatggtggttcaagctcaaaactatcaatatcagcaggtaatagtgcgat 360

                                                                       
Query: 361 tgttagaaatcttgaaataacatgcccaattgataatagttggagagttacaccagcatc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tgttagaaatcttgaaataacatgcccaattgataatagttggagagttacaccagcatc 420

                                                                       
Query: 421 aagtggaccttcaacaaattcaccatcaattttcacaactcaacctgctactaattttaa 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 aagtggaccttcaacaaattcaccatcaattttcacaactcaacctgctactaattttaa 480

                                                                       
Query: 481 ttatggaaaatcaaatttggttttcatggcacaatggaataatgttagtttactcgatgg 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 ttatggaaaatcaaatttggttttcatggcacaatggaataatgttagtttactcgatgg 540

                                                                       
Query: 541 tccagttgaaaactcattcaatataacttatgttacatggagtccaaatagtcattggtt 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 tccagttgaaaactcattcaatataacttatgttacatggagtccaaatagtcattggtt 600

                                                                       
Query: 601 agtttcaaaagatccttcaccaactttaaaatctggtgtaaattatgaatttagtcttga 660
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601 agtttcaaaagatccttcaccaactttaaaatctggtgtaaattatgaatttagtcttga 660

                   
Query: 661 gcttttat 668
           ||||||||
Sbjct: 661 gcttttat 668


>Contig-U13731-1 (Contig-U13731-1Q) /CSM_Contig/Contig-U13731-1Q.Seq.d
          Length = 375

 Score = 63.9 bits (32), Expect = 2e-10
 Identities = 38/40 (95%)
 Strand = Plus / Plus

                                                   
Query: 373 tgaaataacatgcccaattgataatagttggagagttaca 412
           |||||||||||| || ||||||||||||||||||||||||
Sbjct: 228 tgaaataacatgtcccattgataatagttggagagttaca 267


 Score = 30.2 bits (15), Expect = 2.9
 Identities = 15/15 (100%)
 Strand = Plus / Plus

                          
Query: 305 acttgtaatggtggt 319
           |||||||||||||||
Sbjct: 154 acttgtaatggtggt 168


>Contig-U09533-1 (Contig-U09533-1Q) /CSM_Contig/Contig-U09533-1Q.Seq.d
          Length = 1247

 Score = 36.2 bits (18), Expect = 0.047
 Identities = 18/18 (100%)
 Strand = Plus / Plus

                             
Query: 78  ttggtcaattggttgtat 95
           ||||||||||||||||||
Sbjct: 605 ttggtcaattggttgtat 622


  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: 9820
Number of Sequences: 6905
Number of extensions: 9820
Number of successful extensions: 1021
Number of sequences better than 10.0: 120
length of query: 677
length of database: 5,674,871
effective HSP length: 16
effective length of query: 661
effective length of database: 5,564,391
effective search space: 3678062451
effective search space used: 3678062451
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. 1. 3
Homology vs DNA 
Query= Contig-U14830-1 (Contig-U14830-1Q) /CSM_Contig/Contig-U14830-1Q.Seq.d
         (677 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

(BJ423700) Dictyostelium discoideum cDNA clone:ddv50i06, 5' ...  1324   0.0    1
(BJ424631) Dictyostelium discoideum cDNA clone:ddv53f06, 5' ...    64   9e-10  3
(BH949139) odi67g02.g1 B.oleracea002 Brassica oleracea genom...    48   0.060  2
(BH948571) odi67g02.b1 B.oleracea002 Brassica oleracea genom...    48   0.062  2
(BZ076545) lkh87e02.b1 B.oleracea002 Brassica oleracea genom...    48   0.062  2
(BH533608) BOHBX59TF BOHB Brassica oleracea genomic clone BO...    50   0.11   1
(BH594688) BOHIB77TR BOHI Brassica oleracea genomic clone BO...    46   0.20   2
(AC112880) Rattus norvegicus clone CH230-50M7, WORKING DRAFT...    48   0.43   1
(CP000393) Trichodesmium erythraeum IMS101, complete genome.       48   0.43   1
(AM477298) Vitis vinifera, whole genome shotgun sequence, co...    36   0.85   5
(ET632479) vpar_s_266 Veillonella parvula ATCC 17745 genomic...    44   1.1    2
(AC189375) Brassica rapa subsp. pekinensis clone KBrB048L11,...    46   1.7    1
(AC170509) Bos taurus clone CH240-244G19, WORKING DRAFT SEQU...    46   1.7    1
(DU713107) pyl02g09.b1 HK104 Caenorhabditis briggsae genomic...    46   1.7    1
(CE838160) tigr-gss-dog-17000332604275 Dog Library Canis lup...    46   1.7    1
(DX994650) CHORI103-17C8.TJ CHORI103 Schistosoma mansoni gen...    40   3.3    2
(AC149493) Medicago truncatula clone mth2-116k17, complete s...    36   4.3    5
(AC189443) Brassica rapa subsp. pekinensis clone KBrB070J11,...    40   5.4    3
(AJ574787) Glomus intraradices mRNA for zinc transporter 1 (...    38   6.5    2
(CU329671) Schizosaccharomyces pombe chromosome II.                44   6.7    1
(DD041861) Light-driven energy generation using proteorhodop...    44   6.7    1
(CU855738) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   6.7    1
(AC171461) Xenopus tropicalis clone CH216-8H16, WORKING DRAF...    44   6.7    1
(AC171459) Xenopus tropicalis clone CH216-7L20, WORKING DRAF...    44   6.7    1
(ER006643) 1095521379501 Global-Ocean-Sampling_GS-33-01-01-1...    44   6.7    1
(EK313524) 1095462405362 Global-Ocean-Sampling_GS-31-01-01-1...    44   6.7    1
(EJ056366) 1095456031149 Global-Ocean-Sampling_GS-26-01-01-1...    44   6.7    1
(DU296839) 1098448076172 CHORI-243 Ovis aries genomic clone ...    44   6.7    1
(DU040980) 150109 Tomato HindIII BAC Library Solanum lycoper...    44   6.7    1
(CZ996098) 184674 Tomato MboI BAC Library Solanum lycopersic...    44   6.7    1
(AF279106) Uncultured marine gamma proteobacterium EBAC31A08...    44   6.7    1
(AC015617) Homo sapiens, clone RP11-45H23, complete sequence.      38   8.6    2
(CU582803) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    38   9.0    3
(CU826584) A BAC library has been constructed from PN40024 g...    34   9.2    2
(CU827546) A BAC library has been constructed from PN40024 g...    34   9.3    2
(AC087810) Homo sapiens chromosome 2 clone RP11-348J24 map 2...    36   9.9    2

>(BJ423700) Dictyostelium discoideum cDNA clone:ddv50i06, 5' end,
           single read.
          Length = 668

 Score = 1324 bits (668), Expect = 0.0
 Identities = 668/668 (100%)
 Strand = Plus / Plus


Query: 1   ttcaaatatagttggattaatagcaaattcaattgaaattgatagttgttcaatggtgaa 60
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 1   ttcaaatatagttggattaatagcaaattcaattgaaattgatagttgttcaatggtgaa 60


Query: 61  agatcattcaataacaattggtcaattggttgtattctcatcattaaaggtctgttcaag 120
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 61  agatcattcaataacaattggtcaattggttgtattctcatcattaaaggtctgttcaag 120


Query: 121 tcttgatattaaaatcaccaatttaggactttcaccatccaataccattgctgaattgaa 180
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 121 tcttgatattaaaatcaccaatttaggactttcaccatccaataccattgctgaattgaa 180


Query: 181 aacaactagaaatattgatttacaattttcaaatggtttttcaggttcaatctcaattga 240
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 181 aacaactagaaatattgatttacaattttcaaatggtttttcaggttcaatctcaattga 240


Query: 241 ttcaccaagtgtaacattagatccaggttgtacaactacaatttccggtcaaactactac 300
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 241 ttcaccaagtgtaacattagatccaggttgtacaactacaatttccggtcaaactactac 300


Query: 301 tggtacttgtaatggtggttcaagctcaaaactatcaatatcagcaggtaatagtgcgat 360
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 301 tggtacttgtaatggtggttcaagctcaaaactatcaatatcagcaggtaatagtgcgat 360


Query: 361 tgttagaaatcttgaaataacatgcccaattgataatagttggagagttacaccagcatc 420
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 361 tgttagaaatcttgaaataacatgcccaattgataatagttggagagttacaccagcatc 420


Query: 421 aagtggaccttcaacaaattcaccatcaattttcacaactcaacctgctactaattttaa 480
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 421 aagtggaccttcaacaaattcaccatcaattttcacaactcaacctgctactaattttaa 480


Query: 481 ttatggaaaatcaaatttggttttcatggcacaatggaataatgttagtttactcgatgg 540
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 481 ttatggaaaatcaaatttggttttcatggcacaatggaataatgttagtttactcgatgg 540


Query: 541 tccagttgaaaactcattcaatataacttatgttacatggagtccaaatagtcattggtt 600
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 541 tccagttgaaaactcattcaatataacttatgttacatggagtccaaatagtcattggtt 600


Query: 601 agtttcaaaagatccttcaccaactttaaaatctggtgtaaattatgaatttagtcttga 660
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 601 agtttcaaaagatccttcaccaactttaaaatctggtgtaaattatgaatttagtcttga 660


Query: 661 gcttttat 668
           ||||||||
Sbjct: 661 gcttttat 668

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 761,259,503
Number of extensions: 43247771
Number of successful extensions: 3358348
Number of sequences better than 10.0: 36
Length of query: 677
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 653
Effective length of database: 97,308,875,965
Effective search space: 63542696005145
Effective search space used: 63542696005145
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7.12
Homology vs Protein 
Query= Contig-U14830-1 (Contig-U14830-1Q) /CSM_Contig/Contig-U14830-1Q.Seq.d
         (677 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC116984_193(AC116984|pid:none) Dictyostelium discoideum chromos...    35   1.6
BA000030_1312(BA000030|pid:none) Streptomyces avermitilis MA-468...    33   6.0

>AC116984_193(AC116984|pid:none) Dictyostelium discoideum chromosome
           2 map 2567470-3108875 strain AX4, complete sequence.
          Length = 1096

 Score = 35.4 bits (80), Expect = 1.6
 Identities = 19/64 (29%), Positives = 37/64 (57%), Gaps = 6/64 (9%)
 Frame = +2

Query: 398 SWRVTPASSGPSTNSPSIFTT-QPATNFNYGKSNLVFMAQW----NNVSLLDGPVENS-F 559
           ++ +   +     N+   F+T QP+T+  + KSNL F+A+W    N++S + G  ++S F
Sbjct: 23  TYEIVKRNRSSGVNADGTFSTIQPSTDIKFDKSNLEFVAEWDVSANSISNVVGSTDSSEF 82

Query: 560 NITY 571
           ++ Y
Sbjct: 83  SLNY 86

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: 1,057,642,556
Number of extensions: 20060361
Number of successful extensions: 47685
Number of sequences better than 10.0: 2
Number of HSP's gapped: 47658
Number of HSP's successfully gapped: 2
Length of query: 225
Length of database: 1,051,180,864
Length adjustment: 124
Effective length of query: 101
Effective length of database: 649,847,548
Effective search space: 65634602348
Effective search space used: 65634602348
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: 31 (16.5 bits)
PSORT 

 psg: 0.86  gvh: 0.52  alm: 0.38  top: 0.37  tms: 0.00  mit: 0.16  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.00  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 

	 44.0 %: cytoplasmic
	 40.0 %: nuclear
	  8.0 %: vesicles of secretory system
	  4.0 %: Golgi
	  4.0 %: mitochondrial

>> prediction for Contig-U14830-1 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