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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
SSH490
Library SS
(Link to library)
Clone ID SSH490
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15458-1
Original site URL
Representative seq. ID SSH490P
(Link to Original site)
Representative DNA sequence 
>SSH490 (SSH490Q) /CSM/SS/SSH4-D/SSH490Q.Seq.d/
ATAAAAAGTTTCAAGTTAATTTCAATAACATTCCAAAATTACCAAAAGGTAGTTTCGGTG
GCGGTTTTGGTTTATTAGCATTAGGTGGTGTTGGTTTATTAGCACTTAGTAGTTTAGTTA
ATGTTGAAGGTGGTCATAGAGCAATTGTATTTAATAGATTTGTTGGTATAAAGAATAAAG
TTTATAATGAAGGTACTCATTTTATTGTTCCATGGTTTGAACGTGCTGAAATTTATGATG
TTAGAGCTAAACCACGTAGTATTTCATCATTAACTGGTAGTAAAGATCTTCAAATGGTTA
ATATTACAATCAGAGTTTTATCAAAACCAAAAGTTAGTCAACTTCCAGCCATCTATAGAA
CATTXXXXXXXXXXACCATCAATTGTAAATGAAATTTTAAAGAGTATTGTTGCACAATTC
AATGCATCTCAATTAATCACTCAAAGAGAACAAGTGTCAAGATTAATCTTTAAAAGATTA
GTTGATCGTGCTAAAGATTTCAATATTGAATTAGATGATGTTTCAATTACTCATTTAAAT
TTTGGTAGAGAATATGCAGCAGCAATTGAAGCAAAACAAGTTGCACAACAAGAAGCTGAA
AGAGCACGTTTCTTAGTTGAAAAAGCATTACAAGATAAAAGAAGTATCATTGTTAAAGCA
GAAGGTGAAGCCCAATCTGCTCAACTTATTAATGATGCAATTAAACAATCACCATACTTG
GTACAACTTAGAACTTTAGAAGCAAGTAAAGAAATTGCTCATATCCTTTCAAAATCACCA
AACAAATTATATATTAGCAATGAAACTTTATTATTAAATGGTTTTGATTTAAATAATAAT
CAACAACCAAAAAAATAAATAAATAAAATAGTAAATTTAAATTTTATAA
sequence update 1999. 1.17
Translated Amino Acid sequence 
KKFQVNFNNIPKLPKGSFGGGFGLLALGGVGLLALSSLVNVEGGHRAIVFNRFVGIKNKV
YNEGTHFIVPWFERAEIYDVRAKPRSISSLTGSKDLQMVNITIRVLSKPKVSQLPAIYRT
---

---PSIVNEILKSIVAQFNASQLITQREQVSRLIFKRLVDRAKDFNIELDDVSITHLNFG
REYAAAIEAKQVAQQEAERARFLVEKALQDKRSIIVKAEGEAQSAQLINDAIKQSPYLVQ
LRTLEASKEIAHILSKSPNKLYISNETLLLNGFDLNNNQQPKK*inkivnlnfi
Translated Amino Acid sequence (All Frames) 
Frame A:
iksfklisitfqnyqkvvsvavlvy*h*vvlvy*hlvv*lmlkvvieqlylidllv*rik
fimkvlillfhglnvlkfmmlelnhvvfhh*lvvkifkwlilqsefyqnqklvnfqpsie
h---

---tinck*nfkeycctiqcisinhskrtsvkinl*kis*sc*rfqy*ir*cfnysfkfw
*ricssn*sktscttrs*kstfls*ksitr*kkyhc*srr*spicsty**cn*titilgt
t*nfrsk*rncsypfkitkqiiy*q*nfiikwf*fk**sttkkink*nskfkfy

Frame B:
*kvss*fq*hskitkr*frwrfwfisirwcwfist**fs*c*rws*snci**icwyke*s
l**rysfycsmv*tc*nl*c*s*tt*yfiinw**rssng*yynqsfiktks*stsshl*n
i---

---PSIVNEILKSIVAQFNASQLITQREQVSRLIFKRLVDRAKDFNIELDDVSITHLNFG
REYAAAIEAKQVAQQEAERARFLVEKALQDKRSIIVKAEGEAQSAQLINDAIKQSPYLVQ
LRTLEASKEIAHILSKSPNKLYISNETLLLNGFDLNNNQQPKK*inkivnlnfi

Frame C:
KKFQVNFNNIPKLPKGSFGGGFGLLALGGVGLLALSSLVNVEGGHRAIVFNRFVGIKNKV
YNEGTHFIVPWFERAEIYDVRAKPRSISSLTGSKDLQMVNITIRVLSKPKVSQLPAIYRT
---

---hql*mkf*rvllhnsmhln*slkenkcqd*slkd*livlkisiln*mmfqlli*ilv
enmqqqlkqnklhnkklkehvs*lkkhykikevsllkqkvkpnllnllmmqlnnhhtwyn
lel*kqvkkllisfqnhqtnyilamklyy*mvli*iiinnqknk*ik**i*il*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSH490 (SSH490Q) /CSM/SS/SSH4-D/SSH490Q.Seq.d/                       1622   0.0
VSA871 (VSA871Q) /CSM/VS/VSA8-C/VSA871Q.Seq.d/                        940   0.0
FC-BC14 (FC-BC14Q) /CSM/FC/FC-BC/FC-BC14Q.Seq.d/                      940   0.0
SLD792 (SLD792Q) /CSM/SL/SLD7-D/SLD792Q.Seq.d/                        561   e-159
VFG823 (VFG823Q) /CSM/VF/VFG8-A/VFG823Q.Seq.d/                        480   e-134
VFJ741 (VFJ741Q) /CSM/VF/VFJ7-B/VFJ741Q.Seq.d/                         46   0.001
VFA424 (VFA424Q) /CSM/VF/VFA4-A/VFA424Q.Seq.d/                         46   0.001
SSA887 (SSA887Q) /CSM/SS/SSA8-D/SSA887Q.Seq.d/                         46   0.001
VFA372 (VFA372Q) /CSM/VF/VFA3-C/VFA372Q.Seq.d/                         44   0.004
VSD343 (VSD343Q) /CSM/VS/VSD3-B/VSD343Q.Seq.d/                         42   0.014
own update 2004.12.25
Homology vs DNA 

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

BW212868|BW212868.1 Ciona intestinalis cDNA, clone:cieg071n03, 5' end, single read.    54  2e-15  3
BW198989|BW198989.1 Ciona intestinalis cDNA, clone:cicl069i20, 5' end, single read.    54  2e-15  3
BW199124|BW199124.1 Ciona intestinalis cDNA, clone:cicl070b05, 5' end, single read.    54  2e-15  3
AV674019|AV674019.1 Ciona intestinalis cDNA clone:citb13n6 : 5' end, single read.    54  2e-15  3
BW273253|BW273253.1 Ciona intestinalis cDNA, clone:cign065i14, 5' end, single read.    54  2e-15  3
AV978027|AV978027.1 Ciona intestinalis cDNA, clone:cieg47b12, 5' end, single read.    54  2e-15  3
BW244303|BW244303.1 Ciona intestinalis cDNA, clone:citb064d13, 5' end, single read.    54  2e-15  3
BW287191|BW287191.1 Ciona intestinalis cDNA, clone:cigd032g13, 5' end, single read.    54  2e-15  3
BW280703|BW280703.1 Ciona intestinalis cDNA, clone:cigd014k18, 5' end, single read.    54  2e-15  3
AV998687|AV998687.1 Ciona intestinalis cDNA, clone:cicl46j02, 5' end, single read.    54  2e-15  3
dna update 2003. 7.27
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CR382134_616(CR382134|pid:none) Debaryomyces hansenii strain CBS...   184   5e-75
AM427014_1(AM427014|pid:none) Vitis vinifera contig VV78X046091....   183   8e-75
FN392319_1268(FN392319|pid:none) Pichia pastoris GS115 chromosom...   184   1e-74
DQ121388_1(DQ121388|pid:none) Nicotiana benthamiana PHB2 mRNA, c...   183   1e-74
CR380958_279(CR380958|pid:none) Candida glabrata strain CBS138 c...   181   1e-74
EF084456_1(EF084456|pid:none) Picea sitchensis clone WS0299_C04 ...   186   2e-74
EF146265_1(EF146265|pid:none) Populus trichocarpa clone WS0116_L...   182   2e-74
CP000497_437(CP000497|pid:none) Pichia stipitis CBS 6054 chromos...   184   3e-74
S57696(S57696;S64555;S63912) prohibitin PHB2 - yeast (Saccharomy...   177   2e-73
(P50085) RecName: Full=Prohibitin-2;                                  177   2e-73
protein update 2009. 6.12
PSORT 

 psg: 0.70  gvh: 0.59  alm: 0.28  top: 0.30  tms: 0.07  mit: 0.16  mip: 0.09
 nuc: 0.00  erl: 0.00  erm: 0.20  pox: 0.00  px2: 0.00  vac: 0.33  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 1.00  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 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 24.0 %: nuclear
	 24.0 %: endoplasmic reticulum
	 16.0 %: cytoplasmic
	 12.0 %: mitochondrial
	  8.0 %: Golgi
	  4.0 %: extracellular, including cell wall
	  4.0 %: vacuolar
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for SSH490 is nuc
5' end seq. ID SSH490F
5' end seq. 
>SSH490F.Seq
ATAAAAAGTTTCAAGTTAATTTCAATAACATTCCAAAATTACCAAAAGGTAGTTTCGGTG
GCGGTTTTGGTTTATTAGCATTAGGTGGTGTTGGTTTATTAGCACTTAGTAGTTTAGTTA
ATGTTGAAGGTGGTCATAGAGCAATTGTATTTAATAGATTTGTTGGTATAAAGAATAAAG
TTTATAATGAAGGTACTCATTTTATTGTTCCATGGTTTGAACGTGCTGAAATTTATGATG
TTAGAGCTAAACCACGTAGTATTTCATCATTAACTGGTAGTAAAGATCTTCAAATGGTTA
ATATTACAATCAGAGTTTTATCAAAACCAAAAGTTAGTCAACTTCCAGCCATCTATAGAA
CATT----------
Length of 5' end seq. 364
3' end seq. ID SSH490Z
3' end seq. 
>SSH490Z.Seq
----------ACCATCAATTGTAAATGAAATTTTAAAGAGTATTGTTGCACAATTCAATG
CATCTCAATTAATCACTCAAAGAGAACAAGTGTCAAGATTAATCTTTAAAAGATTAGTTG
ATCGTGCTAAAGATTTCAATATTGAATTAGATGATGTTTCAATTACTCATTTAAATTTTG
GTAGAGAATATGCAGCAGCAATTGAAGCAAAACAAGTTGCACAACAAGAAGCTGAAAGAG
CACGTTTCTTAGTTGAAAAAGCATTACAAGATAAAAGAAGTATCATTGTTAAAGCAGAAG
GTGAAGCCCAATCTGCTCAACTTATTAATGATGCAATTAAACAATCACCATACTTGGTAC
AACTTAGAACTTTAGAAGCAAGTAAAGAAATTGCTCATATCCTTTCAAAATCACCAAACA
AATTATATATTAGCAATGAAACTTTATTATTAAATGGTTTTGATTTAAATAATAATCAAC
AACCAAAAAAATAAATAAATAAAATAGTAAATTTAAATTTTATAA
Length of 3' end seq. 515
Connected seq. ID SSH490P
Connected seq. 
>SSH490P.Seq
ATAAAAAGTTTCAAGTTAATTTCAATAACATTCCAAAATTACCAAAAGGTAGTTTCGGTG
GCGGTTTTGGTTTATTAGCATTAGGTGGTGTTGGTTTATTAGCACTTAGTAGTTTAGTTA
ATGTTGAAGGTGGTCATAGAGCAATTGTATTTAATAGATTTGTTGGTATAAAGAATAAAG
TTTATAATGAAGGTACTCATTTTATTGTTCCATGGTTTGAACGTGCTGAAATTTATGATG
TTAGAGCTAAACCACGTAGTATTTCATCATTAACTGGTAGTAAAGATCTTCAAATGGTTA
ATATTACAATCAGAGTTTTATCAAAACCAAAAGTTAGTCAACTTCCAGCCATCTATAGAA
CATT----------ACCATCAATTGTAAATGAAATTTTAAAGAGTATTGTTGCACAATTC
AATGCATCTCAATTAATCACTCAAAGAGAACAAGTGTCAAGATTAATCTTTAAAAGATTA
GTTGATCGTGCTAAAGATTTCAATATTGAATTAGATGATGTTTCAATTACTCATTTAAAT
TTTGGTAGAGAATATGCAGCAGCAATTGAAGCAAAACAAGTTGCACAACAAGAAGCTGAA
AGAGCACGTTTCTTAGTTGAAAAAGCATTACAAGATAAAAGAAGTATCATTGTTAAAGCA
GAAGGTGAAGCCCAATCTGCTCAACTTATTAATGATGCAATTAAACAATCACCATACTTG
GTACAACTTAGAACTTTAGAAGCAAGTAAAGAAATTGCTCATATCCTTTCAAAATCACCA
AACAAATTATATATTAGCAATGAAACTTTATTATTAAATGGTTTTGATTTAAATAATAAT
CAACAACCAAAAAAATAAATAAATAAAATAGTAAATTTAAATTTTATAA
Length of connected seq. 879
Full length Seq ID -
Full length Seq. -
Length of full length seq. -