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
VFA270
Library VF
(Link to library)
Clone ID VFA270
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13706-1
Original site URL
Representative seq. ID VFA270E
(Link to Original site)
Representative DNA sequence 
>VFA270 (VFA270Q) /CSM/VF/VFA2-C/VFA270Q.Seq.d/
ACACATATATACATATATACATATACAAAAATGTTGGGTCGTTTAAGAACTGTTGTCAAA
GCTTCATCATCAAATTCAATTAGAAATTATCTTGGATATACATCAGGAGTTCAAAAAAAA
ACAGTTACAGTTATTCCAGGTGATGGTATTGGTCCAGAGATTACATCATCAGTTATGGGT
GTATTCCAAGCAGCCAAAGTACCAATTGAATGGGAAATTTTCGATATTAGTGGTGGACAA
CCAATTTCACAAGAATTGATTGCATCAATTACTAGAAATAAAGTTGCATTAAAGGGACCA
CTTTACACTGAGATTTTATCAGGATCTCAATCAAGAAATATGGAACTTAGAAAAGCATTA
GATTTATATGCTCACGTTGTACCATGCAAACAAATTCCAGGTATCACCGCACGTCACGAC
GATGTTTTAGTTGATTTTGTTGTCATTAGAGAGAACACCCAAGGTGAGTACAGTGGTCTC
GAACAAGTATTGACACCAGGTGTAGTCCAATCACTTAAAATCATAACCAAAGAAGCATCA
GAACGTATTGCTCGTTACGCATTCGAATATGCCAAAGCAAACGGTAGAAAGAAGGTAACA
GCCGTTCACAAAGCAAACATTCAAAAACAAACCGATGGTCTCTTCCTTGCAACTTGCACT
CAAATCGCCAAAGAGTATCCAGAAATTAAATTTGAAAACACCATCATTGATAATTGTTGT
ATGCAATTGGTTAAATCACCAGAACAATACGATGTTATGGTCACTCCAAACTTATATGGT
AATATTGTCTCAAATATTGGTGCTGCTTTAGTTGGTGGTCCAGGTTTGGCTGGTGGTGCA
AATGTTGGTGAGGGAAGTATTATTTTCGAAATGGGTGCTCATCACGTCGCTGCTGATATC
GCCGGTAAAGATAAAGCAAATCCAACCGGTTTATTATTAGCCTCTGTTATGATGTTAAAA
CATTTAGGCTTAAATGAACATGCTACCAAAGTTGAAAATGCCGTTAAAGCCGTCATTAAA
GAAGGTACCTTAACTTCTGATATCGGTGGTAAATCTTCAACTAAACAATTCACTGGCGCT
GTCATGATTACATTAAAAAAATCAAAACTAATNATAAAATAAAATAAAATAAAAAAATAT
TAAAAAAATAA
sequence update 2001. 6. 9
Translated Amino Acid sequence 
THIYIYTYTKMLGRLRTVVKASSSNSIRNYLGYTSGVQKKTVTVIPGDGIGPEITSSVMG
VFQAAKVPIEWEIFDISGGQPISQELIASITRNKVALKGPLYTEILSGSQSRNMELRKAL
DLYAHVVPCKQIPGITARHDDVLVDFVVIRENTQGEYSGLEQVLTPGVVQSLKIITKEAS
ERIARYAFEYAKANGRKKVTAVHKANIQKQTDGLFLATCTQIAKEYPEIKFENTIIDNCC
MQLVKSPEQYDVMVTPNLYGNIVSNIGAALVGGPGLAGGANVGEGSIIFEMGAHHVAADI
AGKDKANPTGLLLASVMMLKHLGLNEHATKVENAVKAVIKEGTLTSDIGGKSSTKQFTGA
VMITLKKSKLXIK*nkikky*kn
Translated Amino Acid sequence (All Frames) 
Frame A:
THIYIYTYTKMLGRLRTVVKASSSNSIRNYLGYTSGVQKKTVTVIPGDGIGPEITSSVMG
VFQAAKVPIEWEIFDISGGQPISQELIASITRNKVALKGPLYTEILSGSQSRNMELRKAL
DLYAHVVPCKQIPGITARHDDVLVDFVVIRENTQGEYSGLEQVLTPGVVQSLKIITKEAS
ERIARYAFEYAKANGRKKVTAVHKANIQKQTDGLFLATCTQIAKEYPEIKFENTIIDNCC
MQLVKSPEQYDVMVTPNLYGNIVSNIGAALVGGPGLAGGANVGEGSIIFEMGAHHVAADI
AGKDKANPTGLLLASVMMLKHLGLNEHATKVENAVKAVIKEGTLTSDIGGKSSTKQFTGA
VMITLKKSKLXIK*nkikky*kn


Frame B:
hiytyihiqkcwvv*ellsklhhqiqleiildihqefkkkqlqlfqvmvlvqrlhhqlwv
yskqpkyqlngkfsilvvdnqfhkn*lhqlleiklh*rdhftlrfyqdlnqeiwnlekh*
iymltlyhankfqvsphvttmf*lillslertpkvstvvsnky*hqv*snhlks*pkkhq
nvllvthsnmpkqtverr*qpftkqtfknkpmvsslqlalkspksiqklnlktpsliivv
cnwlnhqnntmlwslqtymvilsqilvll*lvvqvwlvvqmlvrevlfskwvlitsllis
pvkikqiqpvyy*pll*c*ni*a*mnmlpklkmplkpslkkvp*llisvvnlqlnnslal
s*lh*knqn*x*nkik*knikki


Frame C:
tyihiyiyknvgsfknccqsfiikfn*klswiyirsskknsysysr*wywsrdyiisygc
ipssqstn*mgnfry*wwttnftridciny*k*scikgttlh*dfirisikkygt*ksir
ficsrctmqtnsryhrtsrrcfs*fcch*rehpr*vqwsrtsidtrcspit*nhnqrsir
tycslriricqskr*kegnsrsqskhsktnrwslpcnlhsnrqrvsrn*i*khhh**lly
aig*itrtircyghskliw*yclkywccfswwsrfgwwckcw*gkyyfrngcssrrc*yr
r*r*sksnrfiislcydvktfrlk*tcyqs*kcr*srh*rrylnf*yrw*ifn*tihwrc
hdyikkiktnxkik*nkkilkk*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFD878 (VFD878Q) /CSM/VF/VFD8-D/VFD878Q.Seq.d/                       2060   0.0
VFA270 (VFA270Q) /CSM/VF/VFA2-C/VFA270Q.Seq.d/                       2060   0.0
CFI391 (CFI391Q) /CSM/CF/CFI3-D/CFI391Q.Seq.d/                       2060   0.0
VFM256 (VFM256Q) /CSM/VF/VFM2-C/VFM256Q.Seq.d/                       2054   0.0
VFL411 (VFL411Q) /CSM/VF/VFL4-A/VFL411Q.Seq.d/                       2054   0.0
VFI681 (VFI681Q) /CSM/VF/VFI6-D/VFI681Q.Seq.d/                       2054   0.0
VFN276 (VFN276Q) /CSM/VF/VFN2-D/VFN276Q.Seq.d/                       2046   0.0
VFF801 (VFF801Q) /CSM/VF/VFF8-A/VFF801Q.Seq.d/                       2046   0.0
VFF490 (VFF490Q) /CSM/VF/VFF4-D/VFF490Q.Seq.d/                       2046   0.0
VFL143 (VFL143Q) /CSM/VF/VFL1-B/VFL143Q.Seq.d/                       2044   0.0
own update 2004.12.25
Homology vs DNA 

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

G65029|G65029.1 DH0538 Dictyostelium discoideum ( P.Dear ) Dictyostelium discoideum STS genomic 5', sequence tagged site.   575  e-160  1
BE451309|BE451309.1 EST402197 tomato root, plants pre-anthesis, Cornell University Lycopersicon esculentum cDNA clone cLEY17P13, mRNA sequence.    50  7e-06  2
BE434906|BE434906.1 EST405984 tomato breaker fruit, TIGR Lycopersicon esculentum cDNA clone cLEG24O19, mRNA sequence.    50  8e-06  2
AW738654|AW738654.1 EST340081 tomato flower buds, anthesis, Cornell University Lycopersicon esculentum cDNA clone cTOD8G3 5', mRNA sequence.    50  8e-06  2
AW617822|AW617822.1 EST324221 L. hirsutum trichome, Cornell University Lycopersicon hirsutum cDNA clone cLHT24L9 5', mRNA sequence.    50  8e-06  2
BI925320|BI925320.1 EST545209 tomato flower, buds 0-3 mm Lycopersicon esculentum cDNA clone cTOA26O11 5' end, mRNA sequence.    50  1e-05  2
BW277250|BW277250.1 Ciona intestinalis cDNA, clone:cign078d17, 5' end, single read.    50  1e-05  2
BG643704|BG643704.1 EST511898 tomato shoot/meristem Lycopersicon esculentum cDNA clone cTOF32G6 5' sequence, mRNA sequence.    50  1e-05  2
BW274976|BW274976.1 Ciona intestinalis cDNA, clone:cign070i08, 5' end, single read.    50  1e-05  2
BW252175|BW252175.1 Ciona intestinalis cDNA, clone:citb092f24, 5' end, single read.    50  1e-05  2
dna update 2003. 8.16
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54B68) RecName: Full=Isocitrate dehydrogenase [NAD] regulatory...   642   0.0
(Q55BI2) RecName: Full=Isocitrate dehydrogenase [NAD] regulatory...   332   2e-89
BT039856_1(BT039856|pid:none) Zea mays full-length cDNA clone ZM...   321   3e-86
BT036874_1(BT036874|pid:none) Zea mays full-length cDNA clone ZM...   318   2e-85
EU965102_1(EU965102|pid:none) Zea mays clone 283827 isocitrate d...   317   4e-85
BT066613_1(BT066613|pid:none) Zea mays full-length cDNA clone ZM...   317   5e-85
BT034072_1(BT034072|pid:none) Zea mays full-length cDNA clone ZM...   317   7e-85
AB189167_1(AB189167|pid:none) Oryza sativa Japonica Group OsIDHa...   317   7e-85
(O13302) RecName: Full=Isocitrate dehydrogenase [NAD] subunit 1,...   316   9e-85
EF085316_1(EF085316|pid:none) Picea sitchensis clone WS02727_N02...   316   1e-84
protein update 2009. 7. 9
PSORT 

 psg: 0.64  gvh: 0.39  alm: 0.40  top: 0.53  tms: 0.00  mit: 0.42  mip: 0.06
 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: 0.00  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 %: mitochondrial
	 16.0 %: cytoplasmic
	 12.0 %: nuclear
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: plasma membrane
	  4.0 %: peroxisomal

>> prediction for VFA270 is mit
5' end seq. ID VFA270F
5' end seq. 
>VFA270F.Seq
ACACATATATACATATATACATATACAAAAATGTTGGGTCGTTTAAGAACTGTTGTCAAA
GCTTCATCATCAAATTCAATTAGAAATTATCTTGGATATACATCAGGAGTTCAAAAAAAA
ACAGTTACAGTTATTCCAGGTGATGGTATTGGTCCAGAGATTACATCATCAGTTATGGGT
GTATTCCAAGCAGCCAAAGTACCAATTGAATGGGAAATTTTCGATATTAGTGGTGGACAA
CCAATTTCACAAGAATTGATTGCATCAATTACTAGAAATAAAGTTGCATTAAAGGGACCA
CTTTACACTGAGATTTTATCAGGATCTCAATCAAGAAATATGGAACTTAGAAAAGCATTA
GATTTATATGCTCACGTTGTACCATGCAAACAAATTCCAGGTATCACCGCACGTCACGAC
GATGTTTTAGTTGATTTTGTTGTCATTAGAGAGAACACCCAAGGTGAGTACAGTGGTCTC
GAACAAGTATTGACACCAGGTGTAGTCCAATCACTTAAAATCATAACCAAAGAAGCATCA
GAACGTATTGCTCGTTACGCATTCGAATATGCCAAAGCAAACGGTAGAAAGAA-------
---
Length of 5' end seq. 593
3' end seq. ID VFA270Z
3' end seq. 
>VFA270Z.Seq
----------AAGTATTGACACCAGGTGTAGTCCAATCACTTAAAATCATAACCAAAGAA
GCATCAGAACGTATTGCTCGTTACGCATTCGAATATGCCAAAGCAAACGGTAGAAAGAAG
GTAACAGCCGTTCACAAAGCAAACATTCAAAAACAAACCGATGGTCTCTTCCTTGCAACT
TGCACTCAAATCGCCAAAGAGTATCCAGAAATTAAATTTGAAAACACCATCATTGATAAT
TGTTGTATGCAATTGGTTAAATCACCAGAACAATACGATGTTATGGTCACTCCAAACTTA
TATGGTAATATTGTCTCAAATATTGGTGCTGCTTTAGTTGGTGGTCCAGGTTTGGCTGGT
GGTGCAAATGTTGGTGAGGGAAGTATTATTTTCGAAATGGGTGCTCATCACGTCGCTGCT
GATATCGCCGGTAAAGATAAAGCAAATCCAACCGGTTTATTATTAGCCTCTGTTATGATG
TTAAAACATTTAGGCTTAAATGAACATGCTACCAAAGTTGAAAATGCCGTTAAAGCCGTC
ATTAAAGAAGGTACCTTAACTTCTGATATCGGTGGTAAATCTTCAACTAAACAATTCACT
GGCGCTGTCATGATTACATTAAAAAAATCAAAACTAATNATAAAATAAAATAAAATAAAA
AAATATTAAAAAAATAA
Length of 3' end seq. 667
Connected seq. ID VFA270P
Connected seq. 
>VFA270P.Seq
ACACATATATACATATATACATATACAAAAATGTTGGGTCGTTTAAGAACTGTTGTCAAA
GCTTCATCATCAAATTCAATTAGAAATTATCTTGGATATACATCAGGAGTTCAAAAAAAA
ACAGTTACAGTTATTCCAGGTGATGGTATTGGTCCAGAGATTACATCATCAGTTATGGGT
GTATTCCAAGCAGCCAAAGTACCAATTGAATGGGAAATTTTCGATATTAGTGGTGGACAA
CCAATTTCACAAGAATTGATTGCATCAATTACTAGAAATAAAGTTGCATTAAAGGGACCA
CTTTACACTGAGATTTTATCAGGATCTCAATCAAGAAATATGGAACTTAGAAAAGCATTA
GATTTATATGCTCACGTTGTACCATGCAAACAAATTCCAGGTATCACCGCACGTCACGAC
GATGTTTTAGTTGATTTTGTTGTCATTAGAGAGAACACCCAAGGTGAGTACAGTGGTCTC
GAACAAGTATTGACACCAGGTGTAGTCCAATCACTTAAAATCATAACCAAAGAAGCATCA
GAACGTATTGCTCGTTACGCATTCGAATATGCCAAAGCAAACGGTAGAAAGAA-------
---AAGTATTGACACCAGGTGTAGTCCAATCACTTAAAATCATAACCAAAGAAGCATCAG
AACGTATTGCTCGTTACGCATTCGAATATGCCAAAGCAAACGGTAGAAAGAAGGTAACAG
CCGTTCACAAAGCAAACATTCAAAAACAAACCGATGGTCTCTTCCTTGCAACTTGCACTC
AAATCGCCAAAGAGTATCCAGAAATTAAATTTGAAAACACCATCATTGATAATTGTTGTA
TGCAATTGGTTAAATCACCAGAACAATACGATGTTATGGTCACTCCAAACTTATATGGTA
ATATTGTCTCAAATATTGGTGCTGCTTTAGTTGGTGGTCCAGGTTTGGCTGGTGGTGCAA
ATGTTGGTGAGGGAAGTATTATTTTCGAAATGGGTGCTCATCACGTCGCTGCTGATATCG
CCGGTAAAGATAAAGCAAATCCAACCGGTTTATTATTAGCCTCTGTTATGATGTTAAAAC
ATTTAGGCTTAAATGAACATGCTACCAAAGTTGAAAATGCCGTTAAAGCCGTCATTAAAG
AAGGTACCTTAACTTCTGATATCGGTGGTAAATCTTCAACTAAACAATTCACTGGCGCTG
TCATGATTACATTAAAAAAATCAAAACTAATNATAAAATAAAATAAAATAAAAAAATATT
AAAAAAATAA
Length of connected seq. 1260
Full length Seq ID VFA270E
Full length Seq. 
>VFA270E.Seq
ACACATATATACATATATACATATACAAAAATGTTGGGTCGTTTAAGAACTGTTGTCAAA
GCTTCATCATCAAATTCAATTAGAAATTATCTTGGATATACATCAGGAGTTCAAAAAAAA
ACAGTTACAGTTATTCCAGGTGATGGTATTGGTCCAGAGATTACATCATCAGTTATGGGT
GTATTCCAAGCAGCCAAAGTACCAATTGAATGGGAAATTTTCGATATTAGTGGTGGACAA
CCAATTTCACAAGAATTGATTGCATCAATTACTAGAAATAAAGTTGCATTAAAGGGACCA
CTTTACACTGAGATTTTATCAGGATCTCAATCAAGAAATATGGAACTTAGAAAAGCATTA
GATTTATATGCTCACGTTGTACCATGCAAACAAATTCCAGGTATCACCGCACGTCACGAC
GATGTTTTAGTTGATTTTGTTGTCATTAGAGAGAACACCCAAGGTGAGTACAGTGGTCTC
GAACAAGTATTGACACCAGGTGTAGTCCAATCACTTAAAATCATAACCAAAGAAGCATCA
GAACGTATTGCTCGTTACGCATTCGAATATGCCAAAGCAAACGGTAGAAAGAAGGTAACA
GCCGTTCACAAAGCAAACATTCAAAAACAAACCGATGGTCTCTTCCTTGCAACTTGCACT
CAAATCGCCAAAGAGTATCCAGAAATTAAATTTGAAAACACCATCATTGATAATTGTTGT
ATGCAATTGGTTAAATCACCAGAACAATACGATGTTATGGTCACTCCAAACTTATATGGT
AATATTGTCTCAAATATTGGTGCTGCTTTAGTTGGTGGTCCAGGTTTGGCTGGTGGTGCA
AATGTTGGTGAGGGAAGTATTATTTTCGAAATGGGTGCTCATCACGTCGCTGCTGATATC
GCCGGTAAAGATAAAGCAAATCCAACCGGTTTATTATTAGCCTCTGTTATGATGTTAAAA
CATTTAGGCTTAAATGAACATGCTACCAAAGTTGAAAATGCCGTTAAAGCCGTCATTAAA
GAAGGTACCTTAACTTCTGATATCGGTGGTAAATCTTCAACTAAACAATTCACTGGCGCT
GTCATGATTACATTAAAAAAATCAAAACTAATNATAAAATAAAATAAAATAAAAAAATAT
TAAAAAAATAA
Length of full length seq. 1151