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
VSF223
Library VS
(Link to library)
Clone ID VSF223
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15105-1
Original site URL
Representative seq. ID VSF223E
(Link to Original site)
Representative DNA sequence 
>VSF223 (VSF223Q) /CSM/VS/VSF2-A/VSF223Q.Seq.d/
ACAATGACTAGTGAAGTTGCATTATTTGGTAAATGGTCATACTCTGGCGTTACTTGTCCA
GATATCTCCTTACAAGATTACATCTGCGTTAAAAAGAATGTCTTCACTCCACATTCAGCA
GGTAGATACAACAAAGTTAGATTCAGAAAGGCCCAATGCCCAATTGTTGAACGTCTTGCC
AACAGTATGATGATGTTCGGTAGAAATGCTGGTAAAAAAGTCATGGCTGTCCGTATCATC
GAACAAGCCTTCGAAATCATCTACCTCTTAACCGATAAGAACCCACTCCAAGTTTTAGTC
GAAGCTGTCATGAACTCTGGTCCACGTGAAGATTCAACTCGTATTGGTTCAGCTGGTACT
GTCAGACGTCAAGCTGTCGATGTTTCCCCAATGAGACGTGTCAACCACGCTGTTTACCTC
TTAACCCAAGGTACTCGTGCTGCTGCTTTCAGAAACATCAGAACTGTTGCTGAATGTTTA
GCTGATGAATTAATCAATGCCTCAAAAGGTTCACCAAATTCCTACTCAATCAAACAAAAG
GATGCTTTAGAACGTACCGCCAAATCCCATCGTTAAGCGATTCGAATATATTATATATTA
TTGNTTCTTTTTAAAACCCCACAAGAAATAAACTATATAAAAAAAAAGAAAATATAAATT
AAAGTAAA
sequence update 2001. 3.25
Translated Amino Acid sequence 
TMTSEVALFGKWSYSGVTCPDISLQDYICVKKNVFTPHSAGRYNKVRFRKAQCPIVERLA
NSMMMFGRNAGKKVMAVRIIEQAFEIIYLLTDKNPLQVLVEAVMNSGPREDSTRIGSAGT
VRRQAVDVSPMRRVNHAVYLLTQGTRAAAFRNIRTVAECLADELINASKGSPNSYSIKQK
DALERTAKSHR*airiyyillxlfktpqeinyikkkki*ikv
Translated Amino Acid sequence (All Frames) 
Frame A:
TMTSEVALFGKWSYSGVTCPDISLQDYICVKKNVFTPHSAGRYNKVRFRKAQCPIVERLA
NSMMMFGRNAGKKVMAVRIIEQAFEIIYLLTDKNPLQVLVEAVMNSGPREDSTRIGSAGT
VRRQAVDVSPMRRVNHAVYLLTQGTRAAAFRNIRTVAECLADELINASKGSPNSYSIKQK
DALERTAKSHR*airiyyillxlfktpqeinyikkkki*ikv


Frame B:
q*lvklhylvnghtlallvqispykitsalkrmsslhiqqvdttkldserpnaqllnvlp
tv**csvemlvkkswlsvssnkpskssts*pirthskf*skls*tlvhvkiqlvlvqlvl
sdvklsmfpq*dvsttlfts*pkvlvlllsetselllnv*lmn*smpqkvhqiptqsnkr
ml*nvppnpivkrfeyiiyyxfflkphkk*ti*kkrkyklk*


Frame C:
nd**sciiw*mvilwrylsrylltrlhlr*keclhstfsr*iqqs*iqkgpmpnc*tscq
qyddvr*kcw*kshgcpyhrtslrnhlplnr*eptpsfsrschelwst*rfnsywfswyc
qtsscrcfpnetcqprclplnpryscccfqkhqncc*mfs**inqclkrftkfllnqtkg
cfrtyrqipslsdsnilyiixsf*nptrnklykkkenin*sk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSF223 (VSF223Q) /CSM/VS/VSF2-A/VSF223Q.Seq.d/                       1265   0.0
VSE854 (VSE854Q) /CSM/VS/VSE8-C/VSE854Q.Seq.d/                       1263   0.0
VSH720 (VSH720Q) /CSM/VS/VSH7-A/VSH720Q.Seq.d/                       1251   0.0
VSJ269 (VSJ269Q) /CSM/VS/VSJ2-C/VSJ269Q.Seq.d/                       1239   0.0
VSI164 (VSI164Q) /CSM/VS/VSI1-C/VSI164Q.Seq.d/                       1239   0.0
FC-BS16 (FC-BS16Q) /CSM/FC/FC-BS/FC-BS16Q.Seq.d/                     1235   0.0
VSK446 (VSK446Q) /CSM/VS/VSK4-B/VSK446Q.Seq.d/                       1229   0.0
VSI727 (VSI727Q) /CSM/VS/VSI7-B/VSI727Q.Seq.d/                       1229   0.0
VSH329 (VSH329Q) /CSM/VS/VSH3-B/VSH329Q.Seq.d/                       1227   0.0
FC-AD21 (FC-AD21Q) /CSM/FC/FC-AD/FC-AD21Q.Seq.d/                     1227   0.0
own update 2004.12.25
Homology vs DNA 

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

AQ450188|AQ450188.1 500008H09.x1 CpIOWAM13mp18gDNA1 Cryptosporidium parvum genomicsimilar to 40S ribosomal protein S5, genomic survey sequence.   107   7e-27  3
BX538352|BX538352.1 Cryptosporidium parvum chromosome 6, complete sequence; segment 3/4.   107   3e-26  2
CD450618|CD450618.1 USDA-FP_102581 Adult Alate Brown Citrus Aphid Toxoptera citricida cDNA clone WHWTC-35_F01 5', mRNA sequence.    72   9e-25  4
AX489078|AX489078.1 Sequence 6378 from Patent WO02053728.          72   2e-22  3
CD421166|CD421166.1 ku80d03.y1 Strongyloides ratti PA female naive pAMP1 v1 Strongyloides ratti cDNA 5' similar to SW:RS5_CAEEL P49041 PROBABLE 40S RIBOSOMAL PROTEIN S5. [1] ;, mRNA sequence.    64   2e-21  3
AA532240|AA532240.1 CpEST.520 uniZAPCpIOWAsporoLib3 Cryptosporidium parvum cDNA 5' similar to 40s ribosomal protein S5, mRNA sequence.   107   4e-21  2
BG301820|BG301820.1 kt05h01.y1 Strongyloides ratti L3 adult SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RS5_CAEEL P49041 PROBABLE 40S RIBOSOMAL PROTEIN S5. [1] ;, mRNA sequence.    64   8e-21  3
BG301832|BG301832.1 kt06a05.y1 Strongyloides ratti L3 adult SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RS5_CAEEL P49041 PROBABLE 40S RIBOSOMAL PROTEIN S5. [1] ;, mRNA sequence.    64   1e-20  3
BG301645|BG301645.1 kt03g01.y1 Strongyloides ratti L1 SL1 Topo1 Chiapelli McCarter Strongyloides ratti cDNA 5' similar to SW:RS5_CAEEL P49041 PROBABLE 40S RIBOSOMAL PROTEIN S5. [1] ;, mRNA sequence.    64   1e-20  3
BI450937|BI450937.1 kt79e06.y4 Strongyloides ratti L2 SL1 TOPO v2 Strongyloides ratti cDNA 5' similar to SW:RS5_CAEEL P49041 PROBABLE 40S RIBOSOMAL PROTEIN S5. [1] ;, mRNA sequence.    64   1e-20  3
dna update 2004. 3.15
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54MA6) RecName: Full=40S ribosomal protein S5;                      376   e-103
AY961565_1(AY961565|pid:none) Lysiphlebus testaceipes ribosomal ...   271   1e-71
AY961522_1(AY961522|pid:none) Lysiphlebus testaceipes ribosomal ...   271   1e-71
AK002235_1(AK002235|pid:none) Mus musculus adult male kidney cDN...   271   1e-71
(P46782) RecName: Full=40S ribosomal protein S5; Contains:   Rec...   271   1e-71
AY891473_1(AY891473|pid:none) Synthetic construct Homo sapiens c...   271   1e-71
AB291558_1(AB291558|pid:none) Solea senegalensis rpS5 mRNA for r...   271   2e-71
AF402813_1(AF402813|pid:none) Ictalurus punctatus 40S ribosomal ...   271   2e-71
FJ196315_1(FJ196315|pid:none) Auxenochlorella protothecoides rib...   271   2e-71
BC054263_1(BC054263|pid:none) Xenopus laevis hypothetical protei...   270   4e-71
protein update 2009. 7.31
PSORT 

 psg: 0.85  gvh: 0.44  alm: 0.36  top: 0.53  tms: 0.00  mit: 0.23  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.20  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: 0.50  bac: 0.00  m1a: 0.00  m1b: 0.00  m2 : 0.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 1.00 

	 80.0 %: cytoplasmic
	 16.0 %: mitochondrial
	  4.0 %: nuclear

>> prediction for VSF223 is cyt
5' end seq. ID VSF223F
5' end seq. 
>VSF223F.Seq
ACAATGACTAGTGAAGTTGCATTATTTGGTAAATGGTCATACTCTGGCGTTACTTGTCCA
GATATCTCCTTACAAGATTACATCTGCGTTAAAAAGAATGTCTTCACTCCACATTCAGCA
GGTAGATACAACAAAGTTAGATTCAGAAAGGCCCAATGCCCAATTGTTGAACGTCTTGCC
AACAGTATGATGATGTTCGGTAGAAATGCTGGTAAAAAAGTCATGGCTGTCCGTATCATC
GAACAAGCCTTCGAAATCATCTACCTCTTAACCGATAAGAACCCACTCCAAGTTTTAGTC
GAAGCTGTCATGAACTCTGGTCCACGTGAAGATTCAACTCGTATTGGTTCAGCTGGTACT
GTCAGACGTCAAGCTGTCGATGTTTCCCCAATGAGACGTGTCAACCACGCTGTTTACCTC
TTAACCCAAGGTACTCGTGCTGCTGCTTTCAGAAACATCAGAACTGTTGCTGAATGTTTA
GCTGATGAATTAATCAATGCCTCAAAAGGTTCACCAAATTCCTACTCAATCAAACAAAAG
GATGCTTTAGAACGTACCGCCAAATCCCATCGTTAAGCGATTCGAATATATTATATATTA
TTGGTTCTTTTTAAAACCCCACAAGAAATAAACTATATAAAAAAAAAGAAAA--------
--
Length of 5' end seq. 652
3' end seq. ID VSF223Z
3' end seq. 
>VSF223Z.Seq
----------CTCCTTACAAGATTACATCTGCGTTAAAAAGAATGTCTTCACTCCACATT
CAGCAGGTAGATACAACAAAGTTAGATTCAGAAAGGCCCAATGCCCAATTGTTGAACGTC
TTGCCAACAGTATGATGATGTTCGGTAGAAATGCTGGTAAAAAAGTCATGGCTGTCCGTA
TCATCGAACAAGCCTTCGAAATCATCTACCTCTTAACCGATAAGAACCCACTCCAAGTTT
TAGTCGAAGCTGTCATGAACTCTGGTCCACGTGAAGATTCAACTCGTATTGGTTCAGCTG
GTACTGTCAGACGTCAAGCTGTCGATGTTTCCCCAATGAGACGTGTCAACCACGCTGTTT
ACCTCTTAACCCAAGGTACTCGTGCTGCTGCTTTCAGAAACATCAGAACTGTTGCTGAAT
GTTTAGCTGATGAATTAATCAATGCCTCAAAAGGTTCACCAAATTCCTACTCAATCAAAC
AAAAGGATGCTTTAGAACGTACCGCCAAATCCCATCGTTAAGCGATTCGAATATATTATA
TATTATTGTTTCTTTTTAAAACCCCACAAGAAATAAACTATATAAAAAAAAAGAAAATAT
AAATTAAAGTAAA
Length of 3' end seq. 603
Connected seq. ID VSF223P
Connected seq. 
>VSF223P.Seq
ACAATGACTAGTGAAGTTGCATTATTTGGTAAATGGTCATACTCTGGCGTTACTTGTCCA
GATATCTCCTTACAAGATTACATCTGCGTTAAAAAGAATGTCTTCACTCCACATTCAGCA
GGTAGATACAACAAAGTTAGATTCAGAAAGGCCCAATGCCCAATTGTTGAACGTCTTGCC
AACAGTATGATGATGTTCGGTAGAAATGCTGGTAAAAAAGTCATGGCTGTCCGTATCATC
GAACAAGCCTTCGAAATCATCTACCTCTTAACCGATAAGAACCCACTCCAAGTTTTAGTC
GAAGCTGTCATGAACTCTGGTCCACGTGAAGATTCAACTCGTATTGGTTCAGCTGGTACT
GTCAGACGTCAAGCTGTCGATGTTTCCCCAATGAGACGTGTCAACCACGCTGTTTACCTC
TTAACCCAAGGTACTCGTGCTGCTGCTTTCAGAAACATCAGAACTGTTGCTGAATGTTTA
GCTGATGAATTAATCAATGCCTCAAAAGGTTCACCAAATTCCTACTCAATCAAACAAAAG
GATGCTTTAGAACGTACCGCCAAATCCCATCGTTAAGCGATTCGAATATATTATATATTA
TTGGTTCTTTTTAAAACCCCACAAGAAATAAACTATATAAAAAAAAAGAAAA--------
--CTCCTTACAAGATTACATCTGCGTTAAAAAGAATGTCTTCACTCCACATTCAGCAGGT
AGATACAACAAAGTTAGATTCAGAAAGGCCCAATGCCCAATTGTTGAACGTCTTGCCAAC
AGTATGATGATGTTCGGTAGAAATGCTGGTAAAAAAGTCATGGCTGTCCGTATCATCGAA
CAAGCCTTCGAAATCATCTACCTCTTAACCGATAAGAACCCACTCCAAGTTTTAGTCGAA
GCTGTCATGAACTCTGGTCCACGTGAAGATTCAACTCGTATTGGTTCAGCTGGTACTGTC
AGACGTCAAGCTGTCGATGTTTCCCCAATGAGACGTGTCAACCACGCTGTTTACCTCTTA
ACCCAAGGTACTCGTGCTGCTGCTTTCAGAAACATCAGAACTGTTGCTGAATGTTTAGCT
GATGAATTAATCAATGCCTCAAAAGGTTCACCAAATTCCTACTCAATCAAACAAAAGGAT
GCTTTAGAACGTACCGCCAAATCCCATCGTTAAGCGATTCGAATATATTATATATTATTG
TTTCTTTTTAAAACCCCACAAGAAATAAACTATATAAAAAAAAAGAAAATATAAATTAAA
GTAAA
Length of connected seq. 1255
Full length Seq ID VSF223E
Full length Seq. 
>VSF223E.Seq
ACAATGACTAGTGAAGTTGCATTATTTGGTAAATGGTCATACTCTGGCGTTACTTGTCCA
GATATCTCCTTACAAGATTACATCTGCGTTAAAAAGAATGTCTTCACTCCACATTCAGCA
GGTAGATACAACAAAGTTAGATTCAGAAAGGCCCAATGCCCAATTGTTGAACGTCTTGCC
AACAGTATGATGATGTTCGGTAGAAATGCTGGTAAAAAAGTCATGGCTGTCCGTATCATC
GAACAAGCCTTCGAAATCATCTACCTCTTAACCGATAAGAACCCACTCCAAGTTTTAGTC
GAAGCTGTCATGAACTCTGGTCCACGTGAAGATTCAACTCGTATTGGTTCAGCTGGTACT
GTCAGACGTCAAGCTGTCGATGTTTCCCCAATGAGACGTGTCAACCACGCTGTTTACCTC
TTAACCCAAGGTACTCGTGCTGCTGCTTTCAGAAACATCAGAACTGTTGCTGAATGTTTA
GCTGATGAATTAATCAATGCCTCAAAAGGTTCACCAAATTCCTACTCAATCAAACAAAAG
GATGCTTTAGAACGTACCGCCAAATCCCATCGTTAAGCGATTCGAATATATTATATATTA
TTGNTTCTTTTTAAAACCCCACAAGAAATAAACTATATAAAAAAAAAGAAAATATAAATT
AAAGTAAA
Length of full length seq. 668