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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-U13455-1
Contig ID Contig-U13455-1
Contig update 2002.12.18
Contig sequence 
>Contig-U13455-1 (Contig-U13455-1Q) /CSM_Contig/Contig-U13455-1Q.Seq.d
TAATTCCAACAACATCAACAAATTCAACAACAATTACAAATGCAACAACA
TATGCAACAACAACAATTACAAATGCAACAACAACAACAAGCTCAACAAC
AAGCTCAACAACAACAAGGTGGTGGAATTGGTAAATCACCAACAATTTCT
GGTAATAATAGTAGTATTGCACCATCACCAAAACAGTTGATGACAATTCG
TGAGAAAATGTTGGAATATATTCAAAAGAATCCATCTGCAACAAGACCAT
CATGTATTCAAGTTGTACAACAACCTTCATCAAAAGTAGTTTGGAAAAAT
CGTCGTTTAGATACACCATTCAAAGTTAAAGTCGATTTGAAAGCCGCCTC
TGCTATGGCTGGTACTAATTTAACAACTGCAAGTGTTATTACAATTGGTA
TTGTGACCGATCACAAAGGTAAACTTCAAATTGATAGTGTTGAAAACTTT
ACCGAAGCATTCAATGGCCAAGGTTTAGCCGTTTTCCAAGGTTTGAAAAT
GACTAAAGGTACTTGGGGTAAAGAATGGCCATTTAACATTTATCGCTGTA
GTTCGTCCAAATAATGCATCTTACAATAATCCAGTTATCATCTCTGTTTC
TCAACCATTTTCAATCGTTGTTAAAACTCGTAAAAATCCACAAATTCGTC
ATAATAGTTATAGTAGTCATATATTAAATAATAACATTATGAGTAATCAA
AATAATAATAATAACAATAATAATAATAATAACAATAACAATAATAATAA
Gap no gap
Contig length 750
Chromosome number (1..6, M) 2
Chromosome length 8467578
Start point 945431
End point 946181
Strand (PLUS/MINUS) PLUS
Number of clones 2
Number of EST 2
Link to clone list U13455
List of clone(s) 

est1=CHD627Z,1,600
est2=SSM186F,415,751
Translated Amino Acid sequence 
*FQQHQQIQQQLQMQQHMQQQQLQMQQQQQAQQQAQQQQGGGIGKSPTISGNNSSIAPSP
KQLMTIREKMLEYIQKNPSATRPSCIQVVQQPSSKVVWKNRRLDTPFKVKVDLKAASAMA
GTNLTTASVITIGIVTDHKGKLQIDSVENFTEAFNGQGLAVFQGLKMTKGTWGKEWPFNI
YRCSSSK*cilq*ssyhlcfstifnrc*ns*kstnss**l**syik**hye*sk****q*
****q*q***
Translated Amino Acid sequence (All Frames) 
Frame A:
*FQQHQQIQQQLQMQQHMQQQQLQMQQQQQAQQQAQQQQGGGIGKSPTISGNNSSIAPSP
KQLMTIREKMLEYIQKNPSATRPSCIQVVQQPSSKVVWKNRRLDTPFKVKVDLKAASAMA
GTNLTTASVITIGIVTDHKGKLQIDSVENFTEAFNGQGLAVFQGLKMTKGTWGKEWPFNI
YRCSSSK*cilq*ssyhlcfstifnrc*ns*kstnss**l**syik**hye*sk****q*
****q*q***


Frame B:
nsnninkfnnnykcnnicnnnnykcnnnnklnnklnnnkvvelvnhqqflviivvlhhhq
ns**qfvrkcwnifkrihlqqdhhvfklynnlhqk*fgkivv*ihhsklksi*kppllwl
vli*qlqvllqlvl*pitkvnfklivlktlpkhsmakv*pfskv*k*lkvlgvknghltf
iavvrpnnasynnpviisvsqpfsivvktrknpqirhnsysshilnnnimsnqnnnnnnn
nnnnnnnnn


Frame C:
ipttstnsttitnattyatttitnattttssttsstttrwwnw*itnnfw****yctitk
tvddns*envgiyskesicnktimyssctttfiksslekssfrytiqs*srfesrlcygw
y*fnnckcyynwycdrsqr*tsn**c*klyrsiqwprfsrfprfend*rylg*rmai*hl
sl*fvqimhltiiqlsslflnhfqsllklvkihkfviivivviy*iitl*vikiiiitii
iiititiii
own update 2004. 6.10
Homology vs CSM-cDNA 
Query= Contig-U13455-1 (Contig-U13455-1Q)
/CSM_Contig/Contig-U13455-1Q.Seq.d
         (750 letters)

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


                                                                   Score     E
Sequences producing significant alignments:                        (bits)  Value

Contig-U13455-1 (Contig-U13455-1Q) /CSM_Contig/Conti...  1102  0.0
Contig-U14844-1 (Contig-U14844-1Q) /CSM_Contig/Conti...    36  0.053
Contig-U12702-1 (Contig-U12702-1Q) /CSM_Contig/Conti...    36  0.053
Contig-U10432-1 (Contig-U10432-1Q) /CSM_Contig/Conti...    36  0.053
Contig-U14399-1 (Contig-U14399-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U13894-1 (Contig-U13894-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U12679-1 (Contig-U12679-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U11288-1 (Contig-U11288-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U11206-1 (Contig-U11206-1Q) /CSM_Contig/Conti...    34  0.21
Contig-U10427-1 (Contig-U10427-1Q) /CSM_Contig/Conti...    34  0.21

>Contig-U13455-1 (Contig-U13455-1Q) /CSM_Contig/Contig-U13455-1Q.Seq.d
          Length = 750

 Score = 1102 bits (556), Expect = 0.0
 Identities = 556/556 (100%)
 Strand = Plus / Plus

                                                                       
Query: 118 ggtggtggaattggtaaatcaccaacaatttctggtaataatagtagtattgcaccatca 177
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 118 ggtggtggaattggtaaatcaccaacaatttctggtaataatagtagtattgcaccatca 177

                                                                       
Query: 178 ccaaaacagttgatgacaattcgtgagaaaatgttggaatatattcaaaagaatccatct 237
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 178 ccaaaacagttgatgacaattcgtgagaaaatgttggaatatattcaaaagaatccatct 237

                                                                       
Query: 238 gcaacaagaccatcatgtattcaagttgtacaacaaccttcatcaaaagtagtttggaaa 297
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 238 gcaacaagaccatcatgtattcaagttgtacaacaaccttcatcaaaagtagtttggaaa 297

                                                                       
Query: 298 aatcgtcgtttagatacaccattcaaagttaaagtcgatttgaaagccgcctctgctatg 357
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 298 aatcgtcgtttagatacaccattcaaagttaaagtcgatttgaaagccgcctctgctatg 357

                                                                       
Query: 358 gctggtactaatttaacaactgcaagtgttattacaattggtattgtgaccgatcacaaa 417
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 358 gctggtactaatttaacaactgcaagtgttattacaattggtattgtgaccgatcacaaa 417

                                                                       
Query: 418 ggtaaacttcaaattgatagtgttgaaaactttaccgaagcattcaatggccaaggttta 477
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 418 ggtaaacttcaaattgatagtgttgaaaactttaccgaagcattcaatggccaaggttta 477

                                                                       
Query: 478 gccgttttccaaggtttgaaaatgactaaaggtacttggggtaaagaatggccatttaac 537
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 478 gccgttttccaaggtttgaaaatgactaaaggtacttggggtaaagaatggccatttaac 537

                                                                       
Query: 538 atttatcgctgtagttcgtccaaataatgcatcttacaataatccagttatcatctctgt 597
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 538 atttatcgctgtagttcgtccaaataatgcatcttacaataatccagttatcatctctgt 597

                                                                       
Query: 598 ttctcaaccattttcaatcgttgttaaaactcgtaaaaatccacaaattcgtcataatag 657
           ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 598 ttctcaaccattttcaatcgttgttaaaactcgtaaaaatccacaaattcgtcataatag 657

                           
Query: 658 ttatagtagtcatata 673
           ||||||||||||||||
Sbjct: 658 ttatagtagtcatata 673


>Contig-U14844-1 (Contig-U14844-1Q) /CSM_Contig/Contig-U14844-1Q.Seq.d
          Length = 650

 Score = 36.2 bits (18), Expect = 0.053
 Identities = 21/22 (95%)
 Strand = Plus / Plus

                                 
Query: 153 taataatagtagtattgcacca 174
           |||||||||||||| |||||||
Sbjct: 423 taataatagtagtaatgcacca 444


>Contig-U12702-1 (Contig-U12702-1Q) /CSM_Contig/Contig-U12702-1Q.Seq.d
          Length = 901

 Score = 36.2 bits (18), Expect = 0.053
 Identities = 18/18 (100%)
 Strand = Plus / Plus

                             
Query: 214 gaatatattcaaaagaat 231
           ||||||||||||||||||
Sbjct: 360 gaatatattcaaaagaat 377


  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: 6133
Number of Sequences: 6905
Number of extensions: 6133
Number of successful extensions: 665
Number of sequences better than 10.0: 82
length of query: 750
length of database: 5,674,871
effective HSP length: 16
effective length of query: 734
effective length of database: 5,564,391
effective search space: 4084262994
effective search space used: 4084262994
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 2008.12. 9
Homology vs DNA 
Query= Contig-U13455-1 (Contig-U13455-1Q) /CSM_Contig/Contig-U13455-1Q.Seq.d
         (750 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

(AC115682) Dictyostelium discoideum chromosome 2 map 4101105...   815   0.0    2
(BJ376624) Dictyostelium discoideum cDNA clone:ddc29e08, 3' ...   940   0.0    1
(AU074827) Dictyostelium discoideum slug cDNA, clone SSM186.      238   e-120  2
(CR376837) Zebrafish DNA sequence from clone CH211-165B17 in...    34   3.8    2
(M15512) T.cruzi kinetoplast minicircle pTckCA1-73 DNA fragm...    44   7.5    1
(M15511) T.cruzi kinetoplast minicircle pTckAWP-2, complete.       44   7.5    1
(CU466374) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    44   7.5    1
(EJ173399) 1092344091163 Global-Ocean-Sampling_GS-27-01-01-1...    44   7.5    1
(CR868058) Sus scrofa BES.                                         44   7.5    1
(AC177071) Strongylocentrotus purpuratus clone R3-4004J21, W...    42   7.9    3

>(AC115682) Dictyostelium discoideum chromosome 2 map 4101105-4158643
             strain AX4, complete sequence.
          Length = 57538

 Score =  815 bits (411), Expect(2) = 0.0
 Identities = 411/411 (100%)
 Strand = Plus / Plus


Query: 118   ggtggtggaattggtaaatcaccaacaatttctggtaataatagtagtattgcaccatca 177
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31697 ggtggtggaattggtaaatcaccaacaatttctggtaataatagtagtattgcaccatca 31756


Query: 178   ccaaaacagttgatgacaattcgtgagaaaatgttggaatatattcaaaagaatccatct 237
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31757 ccaaaacagttgatgacaattcgtgagaaaatgttggaatatattcaaaagaatccatct 31816


Query: 238   gcaacaagaccatcatgtattcaagttgtacaacaaccttcatcaaaagtagtttggaaa 297
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31817 gcaacaagaccatcatgtattcaagttgtacaacaaccttcatcaaaagtagtttggaaa 31876


Query: 298   aatcgtcgtttagatacaccattcaaagttaaagtcgatttgaaagccgcctctgctatg 357
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31877 aatcgtcgtttagatacaccattcaaagttaaagtcgatttgaaagccgcctctgctatg 31936


Query: 358   gctggtactaatttaacaactgcaagtgttattacaattggtattgtgaccgatcacaaa 417
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31937 gctggtactaatttaacaactgcaagtgttattacaattggtattgtgaccgatcacaaa 31996


Query: 418   ggtaaacttcaaattgatagtgttgaaaactttaccgaagcattcaatggccaaggttta 477
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 31997 ggtaaacttcaaattgatagtgttgaaaactttaccgaagcattcaatggccaaggttta 32056


Query: 478   gccgttttccaaggtttgaaaatgactaaaggtacttggggtaaagaatgg 528
             |||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 32057 gccgttttccaaggtttgaaaatgactaaaggtacttggggtaaagaatgg 32107

 Score =  238 bits (120), Expect(2) = 0.0
 Identities = 120/120 (100%)
 Strand = Plus / Plus


Query: 531   atttaacatttatcgctgtagttcgtccaaataatgcatcttacaataatccagttatca 590
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 32109 atttaacatttatcgctgtagttcgtccaaataatgcatcttacaataatccagttatca 32168


Query: 591   tctctgtttctcaaccattttcaatcgttgttaaaactcgtaaaaatccacaaattcgtc 650
             ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Sbjct: 32169 tctctgtttctcaaccattttcaatcgttgttaaaactcgtaaaaatccacaaattcgtc 32228

Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Number of Sequences: 92845959
Number of Hits to DB: 563,335,762
Number of extensions: 30722183
Number of successful extensions: 2202203
Number of sequences better than 10.0: 10
Length of query: 750
Length of database: 95,242,211,685
Length adjustment: 24
Effective length of query: 726
Effective length of database: 97,308,875,965
Effective search space: 70646243950590
Effective search space used: 70646243950590
X1: 11 (21.8 bits)
S2: 22 (44.1 bits)
protein update 2009. 7. 7
Homology vs Protein 
Query= Contig-U13455-1 (Contig-U13455-1Q) /CSM_Contig/Contig-U13455-1Q.Seq.d
         (750 letters)

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

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

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q8T806) RecName: Full=Uncharacterized protein DDB_G0271850;  &A...   276   8e-96
CP000725_1210(CP000725|pid:none) Streptococcus gordonii str. Cha...    34   5.7

>(Q8T806) RecName: Full=Uncharacterized protein DDB_G0271850;
           &AC115682_7(AC115682|pid:none)
          Length = 733

 Score =  276 bits (705), Expect(2) = 8e-96
 Identities = 137/137 (100%), Positives = 137/137 (100%)
 Frame = +1

Query: 118 GGGIGKSPTISGNNSSIAPSPKQLMTIREKMLEYIQKNPSATRPSCIQVVQQPSSKVVWK 297
           GGGIGKSPTISGNNSSIAPSPKQLMTIREKMLEYIQKNPSATRPSCIQVVQQPSSKVVWK
Sbjct: 355 GGGIGKSPTISGNNSSIAPSPKQLMTIREKMLEYIQKNPSATRPSCIQVVQQPSSKVVWK 414

Query: 298 NRRLDTPFKVKVDLKAASAMAGTNLTTASVITIGIVTDHKGKLQIDSVENFTEAFNGQGL 477
           NRRLDTPFKVKVDLKAASAMAGTNLTTASVITIGIVTDHKGKLQIDSVENFTEAFNGQGL
Sbjct: 415 NRRLDTPFKVKVDLKAASAMAGTNLTTASVITIGIVTDHKGKLQIDSVENFTEAFNGQGL 474

Query: 478 AVFQGLKMTKGTWGKEW 528
           AVFQGLKMTKGTWGKEW
Sbjct: 475 AVFQGLKMTKGTWGKEW 491

 Score = 98.6 bits (244), Expect(2) = 8e-96
 Identities = 48/49 (97%), Positives = 49/49 (100%)
 Frame = +2

Query: 530 HLTFIAVVRPNNASYNNPVIISVSQPFSIVVKTRKNPQIRHNSYSSHIL 676
           +LTFIAVVRPNNASYNNPVIISVSQPFSIVVKTRKNPQIRHNSYSSHIL
Sbjct: 492 NLTFIAVVRPNNASYNNPVIISVSQPFSIVVKTRKNPQIRHNSYSSHIL 540

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: 893,833,692
Number of extensions: 16378804
Number of successful extensions: 53571
Number of sequences better than 10.0: 2
Number of HSP's gapped: 53565
Number of HSP's successfully gapped: 3
Length of query: 250
Length of database: 1,051,180,864
Length adjustment: 125
Effective length of query: 125
Effective length of database: 646,610,989
Effective search space: 80826373625
Effective search space used: 80826373625
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: 0.65  gvh: 0.27  alm: 0.39  top: 0.53  tms: 0.00  mit: 0.27  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 

	 36.0 %: cytoplasmic
	 36.0 %: nuclear
	 12.0 %: cytoskeletal
	 12.0 %: mitochondrial
	  4.0 %: vacuolar

>> prediction for Contig-U13455-1 is cyt
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) 1
SH (FL, L) 0
SF (FL, S) 0
CH (FL, L) 1
CF (FL, S) 0
FCL (DIR, L) 0
FC (DIR, S) 0
FC-IC (SUB) 0