NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
SSI190
Library SS
(Link to library)
Clone ID SSI190
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U12223-1
Original site URL
Representative seq. ID SSI190E
(Link to Original site)
Representative DNA sequence 
>SSI190 (SSI190Q) /CSM/SS/SSI1-D/SSI190Q.Seq.d/
ATTAAATAATAATTAAATAATTAAAAAAATGGAATTTTTAATGACATTAGTATTTTTAGT
ATTATTGGTTGAAATTGTATTCTGTACATTTTTTATGTTACCAGTTTCAATGCACCTAAG
AAAGAATGTTTACAATAAATTAGATAAATTATTTGGTGGTCAAAATGCAAAGATCTTTTT
AAAGGTATTGGCATTGTTAGTGATCATTGTATTTTGTGATTCAATTGTAAATTCATATAA
TATCAACAAGAAATTACATACACCAGAATTGACCGGAGCTAAATTTGACAGACAAAATGA
ATATACCCGTATGTTTAGATATCAAAGAAATTCATACATTTGTGGTTTCTGTCTCTATTT
ATTCTTTTTAATCTATCGTTCACAAGGTATCATTAGTCAATTATCAAATGTAGAAGCCTC
AAAAACTGCCATTGAAAAGCAAACTAAAAATAATTTAAATACCGTCGAAACTCTCTTATC
GGAAAATGAAAAATTAAAAACTGAAATTAAAGACCTTAAAAAGATGGAAAAAGAACATAA
AGCTATGAAATCTCAAGCTGAAAATACAACCAAAGAATATCTTAAACTCCAAGAAGAATA
TAATCAACTNTTAGGTAAAAAACCAAAAACTCAAAAGAAAGATGATTAATCATNNTTTTA
ATAATAATAATAATAATTAANTCATTATTATTATTATTATTATCATTATCATCATCAGAT
TTAAATTTATAAAAAAAAATAAATAAAAAAAAAAAAAACTTATTATTATTTTTTTACTAT
T
sequence update 1999. 6.11
Translated Amino Acid sequence 
lnnn*IIKKMEFLMTLVFLVLLVEIVFCTFFMLPVSMHLRKNVYNKLDKLFGGQNAKIFL
KVLALLVIIVFCDSIVNSYNINKKLHTPELTGAKFDRQNEYTRMFRYQRNSYICGFCLYL
FFLIYRSQGIISQLSNVEASKTAIEKQTKNNLNTVETLLSENEKLKTEIKDLKKMEKEHK
AMKSQAENTTKEYLKLQEEYNQLLGKKPKTQKKDD*sxf******lxhyyyyyyhyhhqi
*iykkk*ikkkktyyyffti
Translated Amino Acid sequence (All Frames) 
Frame A:
ik**lnn*kngifndisifsiig*ncilyifyvtsfnapkkeclq*ir*iiwwskckdlf
kgigivsdhcil*fnckfi*yqqeitytridrs*i*qtk*iypyv*iskkfihlwflslf
ilfnlsftryh*siikcrslknch*kan*k*fkyrrnsligk*kikn*n*rp*kdgkrt*
syeiss*kynqris*tprri*stxr*ktknsker*lixxliiiiiixsllllllslsssd
lnl*kkinkkkknlllffyy


Frame B:
lnnn*IIKKMEFLMTLVFLVLLVEIVFCTFFMLPVSMHLRKNVYNKLDKLFGGQNAKIFL
KVLALLVIIVFCDSIVNSYNINKKLHTPELTGAKFDRQNEYTRMFRYQRNSYICGFCLYL
FFLIYRSQGIISQLSNVEASKTAIEKQTKNNLNTVETLLSENEKLKTEIKDLKKMEKEHK
AMKSQAENTTKEYLKLQEEYNQLLGKKPKTQKKDD*sxf******lxhyyyyyyhyhhqi
*iykkk*ikkkktyyyffti


Frame C:
*iiik*lkkwnf**h*yf*yywlklysvhflcyqfqct*ermftin*inylvvkmqrsf*
rywhc**slyfviql*ihiistrnyihqn*pelnltdkmnipvcldikeihtfvvsvsiy
sf*sivhkvslvnyqm*kpqklplksklkii*ipsklsyrkmkn*klklktlkrwkknik
l*nlklkiqpknilnskkniinx*vknqklkrkminhxfnnnnnn*xiiiiiiiiiiirf
kfikknk*kkkkliiifll
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSI190 (SSI190Q) /CSM/SS/SSI1-D/SSI190Q.Seq.d/                        839   0.0
VSF120 (VSF120Q) /CSM/VS/VSF1-A/VSF120Q.Seq.d/                        630   e-180
VSB721 (VSB721Q) /CSM/VS/VSB7-A/VSB721Q.Seq.d/                        597   e-169
VSA222 (VSA222Q) /CSM/VS/VSA2-A/VSA222Q.Seq.d/                        545   e-154
SSK705 (SSK705Q) /CSM/SS/SSK7-A/SSK705Q.Seq.d/                        450   e-125
SSE426 (SSE426Q) /CSM/SS/SSE4-B/SSE426Q.Seq.d/                        361   1e-98
SLJ523 (SLJ523Q) /CSM/SL/SLJ5-A/SLJ523Q.Seq.d/                        359   4e-98
SLH256 (SLH256Q) /CSM/SL/SLH2-C/SLH256Q.Seq.d/                        359   4e-98
SSH311 (SSH311Q) /CSM/SS/SSH3-A/SSH311Q.Seq.d/                        301   8e-81
AHQ650 (AHQ650Q) /CSM/AH/AHQ6-C/AHQ650Q.Seq.d/                        182   5e-45
own update 2004. 6. 1
Homology vs DNA 

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

AL717003|AL717003.1 Danio rerio embryonic inner ear subtracted cDNA library 3PRIM end of clone BN0AA021ZB12 of Danio rerio.    44  0.012  2
AL717094|AL717094.1 Danio rerio embryonic inner ear subtracted cDNA library 5PRIM end of clone BN0AA021ZB12 of Danio rerio.    44  0.015  2
AC133996|AC133996.2 Rattus norvegicus clone CH230-265P19, WORKING DRAFT SEQUENCE, 3 unordered pieces.    48  0.16  1
AC094697|AC094697.6 Rattus norvegicus clone CH230-5F4, *** SEQUENCING IN PROGRESS ***, 3 unordered pieces.    48  0.16  1
BH157717|BH157717.1 ENTTS54TF Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    40  0.23  2
AL954644|AL954644.5 Mouse DNA sequence *** SEQUENCING CANCELLED *** from clone  RP23-94B12.    38  0.44  7
AL392110|AL392110.12 Human DNA sequence from clone RP11-29M23 on chromosome 9.    36  0.58  5
BM523654|BM523654.1 sam86g11.y2 Gm-c1087 Glycine max cDNA clone SOYBEAN CLONE ID: Gm-c1087-1078 5' similar to TR:Q9ZU40 Q9ZU40 F10A8.15 PROTEIN. ;, mRNA sequence.    42  0.58  2
AC087231|AC087231.1 Caenorhabditis briggsae cosmid CB034P13, complete sequence.    46  0.65  1
AC111103|AC111103.6 Mus musculus clone RP23-187G7, *** SEQUENCING IN PROGRESS ***, 3 ordered pieces.    38  0.77  3
dna update 2003. 7.29
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54K74) RecName: Full=Endoplasmic reticulum transmembrane prote...   377   e-103
BT080943_1(BT080943|pid:none) Caligus clemensi clone ccle-evs-51...    82   3e-14
BT078760_1(BT078760|pid:none) Lepeophtheirus salmonis Pacific fo...    79   1e-13
BT076915_1(BT076915|pid:none) Caligus rogercresseyi clone crog-e...    77   8e-13
CR382131_1062(CR382131|pid:none) Yarrowia lipolytica strain CLIB...    74   4e-12
CP000498_657(CP000498|pid:none) Pichia stipitis CBS 6054 chromos...    74   5e-12
AL590445_34(AL590445|pid:none) chromosome V of strain GB-M1 of E...    74   7e-12
BT077060_1(BT077060|pid:none) Caligus rogercresseyi clone crog-e...    73   9e-12
FM992689_217(FM992689|pid:none) Candida dubliniensis CD36 chromo...    72   2e-11
AB168949_1(AB168949|pid:none) Macaca fascicularis testis cDNA, c...    71   4e-11
protein update 2009. 7. 8
PSORT 

 psg: 0.99  gvh: 0.70  alm: 0.19  top: 0.37  tms: 0.07  mit: 0.21  mip: 0.07
 nuc: 0.03  erl: 0.00  erm: 0.80  pox: 0.00  px2: 0.50  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 1.00  tyr: 0.00  leu: 0.07  gpi: 0.00  myr: 0.00
 dna: 0.00  rib: 0.00  bac: 0.00  m1a: 1.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 32.0 %: extracellular, including cell wall
	 32.0 %: plasma membrane
	 24.0 %: endoplasmic reticulum
	 12.0 %: Golgi

>> prediction for SSI190 is exc
5' end seq. ID SSI190F
5' end seq. 
>SSI190F.Seq
ATTAAATAATAATTAAATAATTAAAAAAATGGAATTTTTAATGACATTAGTATTTTTAGT
ATTATTGGTTGAAATTGTATTCTGTACATTTTTTATGTTACCAGTTTCAATGCACCTAAG
AAAGAATGTTTACAATAAATTAGATAAATTATTTGGTGGTCAAAATGCAAAGATCTTTTT
AAAGGTATTGGCATTGTTAGTGATCATTGTATTTTGTGATTCAATTGTAAATTCATATAA
TATCAACAAGAAATTACATACACCAGAATTGACCGGAGCTAAATTTGACAGACAAAATGA
ATATACCCGTATGTTTAGATATCAAAGAAATTCATACATTTGTGGTTTCTGTCTCTATTT
ATTCTTTTTAATCTATCGTTCACAAGGTATCATTAGTCAATTATCAAATGTAGAAGCCTC
AAAAACTGCCATTGAAAAGCAAACTAAAAATAATTTAAATACCGTCGAAACTCTCTTATC
GGAAAATGAAAAATTAAAAACTGAAATTAAAGACCTTAAAAAGATGGAAAAAG-------
---
Length of 5' end seq. 533
3' end seq. ID SSI190Z
3' end seq. 
>SSI190Z.Seq
----------AAACTGAAATTAAAGACCTTAAAAAGATGGAAAAAGAACATAAAGCTATG
AAATCTCAAGCTGAAAATACAACCAAAGAATATCTTAAACTCCAAGAAGAATATAATCAA
CTNTTAGGTAAAAAACCAAAAACTCAAAAGAAAGATGATTAATCATNNTTTTAATAATAA
TAATAATAATTAANTCATTATTATTATTATTATTATCATTATCATCATCAGATTTAAATT
TATAAAAAAAAATAAATAAAAAAAAAAAAAACTTATTATTATTTTTTTACTATT
Length of 3' end seq. 284
Connected seq. ID SSI190P
Connected seq. 
>SSI190P.Seq
ATTAAATAATAATTAAATAATTAAAAAAATGGAATTTTTAATGACATTAGTATTTTTAGT
ATTATTGGTTGAAATTGTATTCTGTACATTTTTTATGTTACCAGTTTCAATGCACCTAAG
AAAGAATGTTTACAATAAATTAGATAAATTATTTGGTGGTCAAAATGCAAAGATCTTTTT
AAAGGTATTGGCATTGTTAGTGATCATTGTATTTTGTGATTCAATTGTAAATTCATATAA
TATCAACAAGAAATTACATACACCAGAATTGACCGGAGCTAAATTTGACAGACAAAATGA
ATATACCCGTATGTTTAGATATCAAAGAAATTCATACATTTGTGGTTTCTGTCTCTATTT
ATTCTTTTTAATCTATCGTTCACAAGGTATCATTAGTCAATTATCAAATGTAGAAGCCTC
AAAAACTGCCATTGAAAAGCAAACTAAAAATAATTTAAATACCGTCGAAACTCTCTTATC
GGAAAATGAAAAATTAAAAACTGAAATTAAAGACCTTAAAAAGATGGAAAAAG-------
---AAACTGAAATTAAAGACCTTAAAAAGATGGAAAAAGAACATAAAGCTATGAAATCTC
AAGCTGAAAATACAACCAAAGAATATCTTAAACTCCAAGAAGAATATAATCAACTNTTAG
GTAAAAAACCAAAAACTCAAAAGAAAGATGATTAATCATNNTTTTAATAATAATAATAAT
AATTAANTCATTATTATTATTATTATTATCATTATCATCATCAGATTTAAATTTATAAAA
AAAAATAAATAAAAAAAAAAAAAACTTATTATTATTTTTTTACTATT
Length of connected seq. 817
Full length Seq ID SSI190E
Full length Seq. 
>SSI190E.Seq
ATTAAATAATAATTAAATAATTAAAAAAATGGAATTTTTAATGACATTAGTATTTTTAGT
ATTATTGGTTGAAATTGTATTCTGTACATTTTTTATGTTACCAGTTTCAATGCACCTAAG
AAAGAATGTTTACAATAAATTAGATAAATTATTTGGTGGTCAAAATGCAAAGATCTTTTT
AAAGGTATTGGCATTGTTAGTGATCATTGTATTTTGTGATTCAATTGTAAATTCATATAA
TATCAACAAGAAATTACATACACCAGAATTGACCGGAGCTAAATTTGACAGACAAAATGA
ATATACCCGTATGTTTAGATATCAAAGAAATTCATACATTTGTGGTTTCTGTCTCTATTT
ATTCTTTTTAATCTATCGTTCACAAGGTATCATTAGTCAATTATCAAATGTAGAAGCCTC
AAAAACTGCCATTGAAAAGCAAACTAAAAATAATTTAAATACCGTCGAAACTCTCTTATC
GGAAAATGAAAAATTAAAAACTGAAATTAAAGACCTTAAAAAGATGGAAAAAGAACATAA
AGCTATGAAATCTCAAGCTGAAAATACAACCAAAGAATATCTTAAACTCCAAGAAGAATA
TAATCAACTNTTAGGTAAAAAACCAAAAACTCAAAAGAAAGATGATTAATCATNNTTTTA
ATAATAATAATAATAATTAANTCATTATTATTATTATTATTATCATTATCATCATCAGAT
TTAAATTTATAAAAAAAAATAAATAAAAAAAAAAAAAACTTATTATTATTTTTTTACTAT
T
Length of full length seq. 781