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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-U01680-1
Contig ID Contig-U01680-1
Contig update 2001. 8.29
Contig sequence 
>Contig-U01680-1 (Contig-U01680-1Q) /CSM_Contig/Contig-U01680-1Q.Seq.d
TGTGATTAAAAAATTAATAATAGTTCTTAAATAGTTTTTAAAATATTAAT
ACAAATATTAAATAAATAGAAAAAAAAAAAAAACCATCTTTATATATAAA
TATTTTTTTTTTAAAAAATAAAAAATAAAAATAAAATAAAAATATAAATT
ATTATTAATTAAAGAAATATAAAAATGATCAAAATAAATAAACCTAGTTT
TTTAATTATTTTTTTAATAGTATTTTCAATTATAAATTTTAAAGATATAG
TAGTAAAAGCAGATGATACAACAACACCAGCACCAACAACAACAACAACA
CAACCAACATCAACACCAACTCAAAATTTAACAGTAAAATATAGTTTTGA
AATTTCACAATTAAGTCAAGATGATAAATATTATAATGCAACATTACAAG
GATGGATAGATAGTGATGGTAATATATTTCATTATTCAAGTTGTATAGAT
AATGTTGAAAAGAAATGCCCAATGGCATCATACAGAGATAACATTTCAAG
AATTCATTATGTTGAATATTGTGTTCCAATTGATTATGATTGTTGTGGTT
GTAACACTGTTGGTCAACCAGTTTATATTAAAGGTGAAAAGAATACAGTT
CTTACAAAAGTTGGAAGTTGTTTTGGTTGTCCTTCAGATTCAGTATGTAC
CACTAGAAACGGTGCTGGTTTACGTTATTTCTGTGGCAGAAAACCAACTT
CAAATTCTAATAAATTAAATTCACCACCAATAACTTTACTAACTTTTATA
ATAATTTCAATTTTAATTATATTAATATAATTTAATTAATATTTTTTTAA
AAAAAAAATTAAAATTAATATATTTTAATATATATATATATATTTAACAC
A----------TTTTTTTTAAAAAAAAATTTNTTTTAATTTTTTTTTATT
TTTTTTTTTTTTTTTTCCCCCAAAAAAAAAAAAAAAAAAAAAATTTTTAT
TATTTTTAATTTAAAATTTAAAAAATTAAAATTTATTAAAAAATTTTTTA
ATTTAATTTGTATTTTTAAATTTAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AA
Gap gap included
Contig length 1092
Chromosome number (1..6, M) 1
Chromosome length 4919822
Start point 316949
End point 318270
Strand (PLUS/MINUS) PLUS
Number of clones 10
Number of EST 11
Link to clone list U01680
List of clone(s) 

est1=SSI701F,1,649
est2=SSH317E,2,841
est3=SSG252F,8,650
est4=SSG831F,9,268
est5=SSL146Z,226,850
est6=SSE387F,293,535
est7=SSK336Z,298,851
est8=SSD281Z,384,846
est9=SSD222E,665,852
est10=SSK134Z,684,850
est11=SSE387Z,853,1094
Translated Amino Acid sequence 
*lkn***flnsf*nintnik*iekkkkpslyinifflknkk*k*nkninyy*lkkykndq
nk*t*ffnyffnsifnykf*ryssksr*ynntstnnnnnttnintnskfnski*f*nfti
ksr**il*cnitrmdr**w*yislfklyr*c*kempngiiqr*hfknslc*ilcsn*l*l
lwl*hcwstsly*r*keyssykswklfwlsfrfsmyh*krcwftlflwqktnfkf**ikf
ttnnftnfynnfnfnyinii*liff*kkn*n*YILIYIYIFNT---

---FFKKKFXLIFFYFFFFFFPQKKKKKKNFYYF*fki*kikiy*kif*fnlyf*i*kkk
kkkkkkkkkkkkkkkkkkkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
cd*kinnss*ivfkiliqilnk*kkkknhlyi*ifff*kiknknkiki*iiin*rnikmi
kinkpsfliiflivfsiinfkdivvkaddtttpaptttttqptstptqnltvkysfeisq
lsqddkyynatlqgwidsdgnifhysscidnvekkcpmasyrdnisrihyveycvpidyd
ccgcntvgqpvyikgekntvltkvgscfgcpsdsvcttrngaglryfcgrkptsnsnkln
sppitlltfiiisiliili*fn*yffkkkikinif*yiyiylt---

---fflkknxf*fffifffffspkkkkkkkifiifnlkfkklkfikkffnlicifkfkkk
kkkkkkkkkkkkkkkkkkkkkkk

Frame B:
vikkliivlk*flky*yky*inrkkkktifiykyfffkk*kikik*kyklllikei*k*s
k*inlvf*lff**yfql*ilki***kqmiqqhqhqqqqqhnqhqhqlki*q*nivlkfhn
*vkminiimqhykdg*ivmviyfiiqvv*imlkrnaqwhhteitfqefimlnivfqlimi
vvvvtllvnqfilkvkriqflqklevvlvvlqiqyvpletvlvyvisvaenqlqilin*i
hhq*ly*ll**fqf*ly*ynliniflkkklkliyfniyiyi*h---

---ff*kkixfnfflffffffppkkkkkkkfllfli*nlkn*nllknfli*fvflnlkkk
kkkkkkkkkkkkkkkkkkkkkkk

Frame C:
*lkn***flnsf*nintnik*iekkkkpslyinifflknkk*k*nkninyy*lkkykndq
nk*t*ffnyffnsifnykf*ryssksr*ynntstnnnnnttnintnskfnski*f*nfti
ksr**il*cnitrmdr**w*yislfklyr*c*kempngiiqr*hfknslc*ilcsn*l*l
lwl*hcwstsly*r*keyssykswklfwlsfrfsmyh*krcwftlflwqktnfkf**ikf
ttnnftnfynnfnfnyinii*liff*kkn*n*YILIYIYIFNT---

---FFKKKFXLIFFYFFFFFFPQKKKKKKNFYYF*fki*kikiy*kif*fnlyf*i*kkk
kkkkkkkkkkkkkkkkkkkkkk
own update 2004. 6. 7
Homology vs CSM-cDNA 
Query= Contig-U01680-1 (Contig-U01680-1Q)
/CSM_Contig/Contig-U01680-1Q.Seq.d
         (1102 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U01680-1 (Contig-U01680-1Q) /CSM_Contig/Conti...   807  0.0
Contig-U01743-1 (Contig-U01743-1Q) /CSM_Contig/Conti...    52  2e-06
Contig-U14004-1 (Contig-U14004-1Q) /CSM_Contig/Conti...    46  1e-04
Contig-U13939-1 (Contig-U13939-1Q) /CSM_Contig/Conti...    46  1e-04
Contig-U05480-1 (Contig-U05480-1Q) /CSM_Contig/Conti...    46  1e-04
Contig-U11498-1 (Contig-U11498-1Q) /CSM_Contig/Conti...    44  4e-04
Contig-U13052-1 (Contig-U13052-1Q) /CSM_Contig/Conti...    42  0.002
Contig-U13046-1 (Contig-U13046-1Q) /CSM_Contig/Conti...    42  0.002
Contig-U12475-1 (Contig-U12475-1Q) /CSM_Contig/Conti...    42  0.002
Contig-U11451-1 (Contig-U11451-1Q) /CSM_Contig/Conti...    42  0.002

>Contig-U01680-1 (Contig-U01680-1Q) /CSM_Contig/Contig-U01680-1Q.Seq.d
          Length = 1102

 Score =  807 bits (407), Expect = 0.0
 Identities = 407/407 (100%)
 Strand = Plus / Plus

                                                                       
Query: 321 tcaaaatttaacagtaaaatatagttttgaaatttcacaattaagtcaagatgataaata 380
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 321 tcaaaatttaacagtaaaatatagttttgaaatttcacaattaagtcaagatgataaata 380

                                                                       
Query: 381 ttataatgcaacattacaaggatggatagatagtgatggtaatatatttcattattcaag 440
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 381 ttataatgcaacattacaaggatggatagatagtgatggtaatatatttcattattcaag 440

                                                                       
Query: 441 ttgtatagataatgttgaaaagaaatgcccaatggcatcatacagagataacatttcaag 500
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 441 ttgtatagataatgttgaaaagaaatgcccaatggcatcatacagagataacatttcaag 500

                                                                       
Query: 501 aattcattatgttgaatattgtgttccaattgattatgattgttgtggttgtaacactgt 560
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 501 aattcattatgttgaatattgtgttccaattgattatgattgttgtggttgtaacactgt 560

                                                                       
Query: 561 tggtcaaccagtttatattaaaggtgaaaagaatacagttcttacaaaagttggaagttg 620
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 561 tggtcaaccagtttatattaaaggtgaaaagaatacagttcttacaaaagttggaagttg 620

                                                                       
Query: 621 ttttggttgtccttcagattcagtatgtaccactagaaacggtgctggtttacgttattt 680
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 621 ttttggttgtccttcagattcagtatgtaccactagaaacggtgctggtttacgttattt 680

                                                          
Query: 681 ctgtggcagaaaaccaacttcaaattctaataaattaaattcaccac 727
           |||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 681 ctgtggcagaaaaccaacttcaaattctaataaattaaattcaccac 727


 Score = 85.7 bits (43), Expect = 1e-16
 Identities = 43/43 (100%)
 Strand = Plus / Plus

                                                      
Query: 809 ttaaaattaatatattttaatatatatatatatatttaacaca 851
           |||||||||||||||||||||||||||||||||||||||||||
Sbjct: 809 ttaaaattaatatattttaatatatatatatatatttaacaca 851


 Score = 58.0 bits (29), Expect = 3e-08
 Identities = 29/29 (100%)
 Strand = Plus / Plus

                                        
Query: 84  ccatctttatatataaatatttttttttt 112
           |||||||||||||||||||||||||||||
Sbjct: 84  ccatctttatatataaatatttttttttt 112


 Score = 52.0 bits (26), Expect = 2e-06
 Identities = 26/26 (100%)
 Strand = Plus / Plus

                                     
Query: 242 aagatatagtagtaaaagcagatgat 267
           ||||||||||||||||||||||||||
Sbjct: 242 aagatatagtagtaaaagcagatgat 267


 Score = 44.1 bits (22), Expect = 4e-04
 Identities = 22/22 (100%)
 Strand = Plus / Plus

                                 
Query: 176 tgatcaaaataaataaacctag 197
           ||||||||||||||||||||||
Sbjct: 176 tgatcaaaataaataaacctag 197


 Score = 36.2 bits (18), Expect = 0.11
 Identities = 18/18 (100%)
 Strand = Plus / Minus

                             
Query: 827 aatatatatatatatatt 844
           ||||||||||||||||||
Sbjct: 844 aatatatatatatatatt 827


>Contig-U01743-1 (Contig-U01743-1Q) /CSM_Contig/Contig-U01743-1Q.Seq.d
          Length = 163

 Score = 52.0 bits (26), Expect = 2e-06
 Identities = 26/26 (100%)
 Strand = Plus / Plus

                                     
Query: 823 ttttaatatatatatatatatttaac 848
           ||||||||||||||||||||||||||
Sbjct: 1   ttttaatatatatatatatatttaac 26


 Score = 36.2 bits (18), Expect = 0.11
 Identities = 18/18 (100%)
 Strand = Plus / Minus

                             
Query: 827 aatatatatatatatatt 844
           ||||||||||||||||||
Sbjct: 22  aatatatatatatatatt 5


 Score = 30.2 bits (15), Expect = 6.7
 Identities = 15/15 (100%)
 Strand = Plus / Minus

                          
Query: 812 aaattaatatatttt 826
           |||||||||||||||
Sbjct: 111 aaattaatatatttt 97


>Contig-U14004-1 (Contig-U14004-1Q) /CSM_Contig/Contig-U14004-1Q.Seq.d
          Length = 199

 Score = 46.1 bits (23), Expect = 1e-04
 Identities = 26/27 (96%)
 Strand = Plus / Plus

                                      
Query: 818 atatattttaatatatatatatatatt 844
           ||||||||| |||||||||||||||||
Sbjct: 17  atatatttttatatatatatatatatt 43


 Score = 36.2 bits (18), Expect = 0.11
 Identities = 18/18 (100%)
 Strand = Plus / Minus

                             
Query: 826 taatatatatatatatat 843
           ||||||||||||||||||
Sbjct: 44  taatatatatatatatat 27


 Score = 30.2 bits (15), Expect = 6.7
 Identities = 15/15 (100%)
 Strand = Plus / Minus

                          
Query: 828 atatatatatatata 842
           |||||||||||||||
Sbjct: 40  atatatatatatata 26


  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: 29,308
Number of Sequences: 8361
Number of extensions: 29308
Number of successful extensions: 4923
Number of sequences better than 10.0: 587
length of query: 1102
length of database: 7,895,291
effective HSP length: 16
effective length of query: 1086
effective length of database: 7,761,515
effective search space: 8429005290
effective search space used: 8429005290
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. 3
Homology vs DNA 
Query= Contig-U01680-1 (Contig-U01680-1Q) /CSM_Contig/Contig-U01680-1Q.Seq.d
         (1102 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

(C94475) Dictyostelium discoideum slug cDNA, clone SSL146.        809   0.0    2
(AU038136) Dictyostelium discoideum slug cDNA, clone SSH317.      801   0.0    1
(C91483) Dictyostelium discoideum slug cDNA, clone SSK336.        801   0.0    1
(C92241) Dictyostelium discoideum slug cDNA, clone SSD281.        507   e-175  2
(AU072385) Dictyostelium discoideum slug cDNA, clone SSE387.      420   e-113  1
(C92199) Dictyostelium discoideum slug cDNA, clone SSD222.        111   6e-20  1
(C91370) Dictyostelium discoideum slug cDNA, clone SSK134.         68   2e-11  2
(CV175313) PAPILIOdpolyt_B02_1_014 Papilio dardanus cDNA Pap...    50   0.18   1
(CV175230) PAPILIObpolyt_H06_1_057 Papilio dardanus cDNA Pap...    50   0.18   1
(AC222524) Macaca mulatta clone CH250-49B4, WORKING DRAFT SE...    34   0.41   2
(AC145959) Gallus gallus chromosome UNK clone CH261-17M10, c...    48   0.73   1
(AP009300) Solanum lycopersicum genomic DNA, chromosome 8, c...    48   0.73   1
(CU179907) Medicago truncatula chromosome 5 clone mth2-130n2...    40   1.4    2
(AC151428) Otolemur garnettii clone CH256-536E19, WORKING DR...    46   2.9    1
(AC147936) Otolemur garnettii clone CH256-415A13, WORKING DR...    46   2.9    1
(EJ633364) 1092966607644 Global-Ocean-Sampling_GS-29-01-01-1...    46   2.9    1
(EI005686) MUGQ_CH252P177G20T7_CN244_074 CHORI-252 Vervet Mo...    46   2.9    1
(ED484723) MUGQ_CH252P113F13Sp6_CN66_059 CHORI-252 Vervet Mo...    46   2.9    1
(AL396830) T3 end of clone AR0AA032H10 of library AR0AA from...    46   2.9    1
(AL396791) T3 end of clone AR0AA032F10 of library AR0AA from...    46   2.9    1
(AL396714) T3 end of clone AR0AA032B09 of library AR0AA from...    46   2.9    1

>(C94475) Dictyostelium discoideum slug cDNA, clone SSL146.
          Length = 625

 Score =  809 bits (408), Expect(2) = 0.0
 Identities = 408/408 (100%)
 Strand = Plus / Plus


Query: 321 tcaaaatttaacagtaaaatatagttttgaaatttcacaattaagtcaagatgataaata 380
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 96  tcaaaatttaacagtaaaatatagttttgaaatttcacaattaagtcaagatgataaata 155


Query: 381 ttataatgcaacattacaaggatggatagatagtgatggtaatatatttcattattcaag 440
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 156 ttataatgcaacattacaaggatggatagatagtgatggtaatatatttcattattcaag 215


Query: 441 ttgtatagataatgttgaaaagaaatgcccaatggcatcatacagagataacatttcaag 500
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 216 ttgtatagataatgttgaaaagaaatgcccaatggcatcatacagagataacatttcaag 275


Query: 501 aattcattatgttgaatattgtgttccaattgattatgattgttgtggttgtaacactgt 560
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 276 aattcattatgttgaatattgtgttccaattgattatgattgttgtggttgtaacactgt 335


Query: 561 tggtcaaccagtttatattaaaggtgaaaagaatacagttcttacaaaagttggaagttg 620
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 336 tggtcaaccagtttatattaaaggtgaaaagaatacagttcttacaaaagttggaagttg 395


Query: 621 ttttggttgtccttcagattcagtatgtaccactagaaacggtgctggtttacgttattt 680
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 396 ttttggttgtccttcagattcagtatgtaccactagaaacggtgctggtttacgttattt 455


Query: 681 ctgtggcagaaaaccaacttcaaattctaataaattaaattcaccacc 728
           ||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 456 ctgtggcagaaaaccaacttcaaattctaataaattaaattcaccacc 503

 Score = 50.1 bits (25), Expect(2) = 0.0
 Identities = 25/25 (100%)
 Strand = Plus / Plus


Query: 243 agatatagtagtaaaagcagatgat 267
           |||||||||||||||||||||||||
Sbjct: 18  agatatagtagtaaaagcagatgat 42

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 102105510
Number of Hits to DB: 627,826,938
Number of extensions: 39489885
Number of successful extensions: 3246619
Number of sequences better than 10.0: 21
Length of query: 1102
Length of database: 101,790,757,118
Length adjustment: 24
Effective length of query: 1078
Effective length of database: 99,340,224,878
Effective search space: 107088762418484
Effective search space used: 107088762418484
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7.18
Homology vs Protein 
Query= Contig-U01680-1 (Contig-U01680-1Q) /CSM_Contig/Contig-U01680-1Q.Seq.d
         (1102 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

FM995164_1(FM995164|pid:none) Nakaseomyces delphensis complete m...    39   0.33
AL844509_46(AL844509|pid:none) Plasmodium falciparum 3D7 chromos...    36   2.1
T23167(T23167) hypothetical protein K01C8.2 - Caenorhabditis ele...    35   3.6
AE014187_324(AE014187|pid:none) Plasmodium falciparum 3D7 chromo...    35   6.1
AE014188_212(AE014188|pid:none) Plasmodium falciparum 3D7 chromo...    35   6.1
AL844503_189(AL844503|pid:none) Plasmodium falciparum 3D7 chromo...    34   8.0
CR388080_1(CR388080|pid:none) Zebrafish DNA sequence from clone ...    34   8.0

>FM995164_1(FM995164|pid:none) Nakaseomyces delphensis complete
           mitochondrial genome, strain CBS 2170.
          Length = 341

 Score = 38.9 bits (89), Expect = 0.33
 Identities = 31/109 (28%), Positives = 52/109 (47%), Gaps = 7/109 (6%)
 Frame = -1

Query: 649 YILNLKDNQNNFQLL*ELYSFHL*YKLVDQQCYNHNNHNQLEHNIQHNEFLKCYLCMMPL 470
           Y+  L +N NN Q +  + ++ L       Q YN+NN+N + + I      K    +M L
Sbjct: 44  YMTELNNNGNNLQHINNMNTWKL-------QNYNYNNNNTINNYINMKLINKLLFKIMSL 96

Query: 469 G-----ISFQHYLYNLN--NEIYYHHYLSILVMLHYNIYHLDLIVKFQN 344
                 IS   Y  NLN  N  +Y++Y +  +    NIY+++++ K  N
Sbjct: 97  NNNKIIISNPTYNINLNNINIKFYYYYNNNNINNSNNIYYMNIMNKLMN 145

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: 690,996,871
Number of extensions: 11786159
Number of successful extensions: 31168
Number of sequences better than 10.0: 7
Number of HSP's gapped: 31013
Number of HSP's successfully gapped: 7
Length of query: 367
Length of database: 1,051,180,864
Length adjustment: 130
Effective length of query: 237
Effective length of database: 630,428,194
Effective search space: 149411481978
Effective search space used: 149411481978
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: 0.94  gvh: 0.38  alm: 0.39  top: 0.67  tms: 0.00  mit: 0.34  mip: 0.00
 nuc: 0.30  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 

	 56.0 %: nuclear
	 24.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for Contig-U01680-1 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) 10
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