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
VHM244
Library VH
(Link to library)
Clone ID VHM244
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16406-1
Original site URL
Representative seq. ID VHM244P
(Link to Original site)
Representative DNA sequence 
>VHM244 (VHM244Q) /CSM/VH/VHM2-B/VHM244Q.Seq.d/
ATTTTTACGTCAAAATCAAAATGGATAAAGCTGCCGTCGTTGTTCGTACCAGAAAGGTCT
TAACCAACCGTGCTCCTCTCAAGAAAGCAATTCGTTGTCGAAGTTGTTCACCCAGGTAAA
GCCAACGTCTCCAAAAAAGACTTAAAAACCACCATTGCTAAACTCCACAAAGTTGCTGAC
CCAGAAACCATCTTCCTCTTTGGTTTCAAGACTGACTTCGGTGGTGGTAAATCAACTGGT
TTCGGTTTAATCTATGACAACTTAGAAATTGCCAAGAAATACGAACCAAAATACCGTCTT
GCACGTGCTGGTTTATACACTAAACCACAAACCTCAGAXXXXXXXXXXATTTTTACGTCA
AAATCAAAATGGATAAAGCTGCCGTCGTTGTTCGTACCAGAAAGGTCTTAACCAACCGTC
TCCTCTCAAGAAAGCAATTCGTTGTCGAAGTTGTTCACCCAGGTAAAGCCAACGTCTCCA
AAAAAGACTTAAAAACCACCATTGCTAAACTCCACAAAGTTGCTGACCCAGAAACCATCT
TCCTCTTTGGTTTCAAGACTGACTTCGGTGGTGGTAAATCAACTGGTTTCGGTTTAATCT
ATGACAACTTAGAAATTGCCAAGAAATACGAACCAAAATACCGTCTTGCAC
sequence update 2002.10.25
Translated Amino Acid sequence 
iftskskwiklpslfvpers*PTVLLSRKQFVVEVVHPGKANVSKKDLKTTIAKLHKVAD
PETIFLFGFKTDFGGGKSTGFGLIYDNLEIAKKYEPKYRLARAGLYTKPQTS---

---FYVKIKMDKAAVVVRTRKVLTNRLLSRKQFVVEVVHPGKANVSKKDLKTTIAKLHKV
ADPETIFLFGFKTDFGGGKSTGFGLIYDNLEIAKKYEPKYRLA
Translated Amino Acid sequence (All Frames) 
Frame A:
iftskskwiklpslfvpers*PTVLLSRKQFVVEVVHPGKANVSKKDLKTTIAKLHKVAD
PETIFLFGFKTDFGGGKSTGFGLIYDNLEIAKKYEPKYRLARAGLYTKPQTS---

---iftskskwiklpslfvpers*ptvssqesnslsklftqvkptspkkt*kppllnstk
lltqkpssslvsrltsvvvnqlvsv*smtt*klprntnqntvlh

Frame B:
flrqnqng*scrrcsyqkglnqpcssqesnslsklftqvkptspkkt*kppllnstkllt
qkpssslvsrltsvvvnqlvsv*smtt*klprntnqntvlhvlvytlnhkpq---

---flrqnqng*scrrcsyqkglnqpsplkkaircrscspr*sqrlqkrlknhhc*tpqs
c*prnhlplwfqd*lrww*inwfrfnl*qlrncqeirtkipsc

Frame C:
fyvkikmdkaavvvrtrkvltnraplkkaircrscspr*sqrlqkrlknhhc*tpqsc*p
rnhlplwfqd*lrww*inwfrfnl*qlrncqeirtkipsctcwfih*ttnlr---

---FYVKIKMDKAAVVVRTRKVLTNRLLSRKQFVVEVVHPGKANVSKKDLKTTIAKLHKV
ADPETIFLFGFKTDFGGGKSTGFGLIYDNLEIAKKYEPKYRLA
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHM244 (VHM244Q) /CSM/VH/VHM2-B/VHM244Q.Seq.d/                       1231   0.0
VSG303 (VSG303Q) /CSM/VS/VSG3-A/VSG303Q.Seq.d/                        630   e-180
VFL285 (VFL285Q) /CSM/VF/VFL2-D/VFL285Q.Seq.d/                        630   e-180
VHA141 (VHA141Q) /CSM/VH/VHA1-B/VHA141Q.Seq.d/                        628   e-179
VFF664 (VFF664Q) /CSM/VF/VFF6-C/VFF664Q.Seq.d/                        628   e-179
VSK228 (VSK228Q) /CSM/VS/VSK2-B/VSK228Q.Seq.d/                        622   e-177
VSH155 (VSH155Q) /CSM/VS/VSH1-C/VSH155Q.Seq.d/                        622   e-177
VSB755 (VSB755Q) /CSM/VS/VSB7-C/VSB755Q.Seq.d/                        622   e-177
VSJ273 (VSJ273Q) /CSM/VS/VSJ2-D/VSJ273Q.Seq.d/                        618   e-176
VSB649 (VSB649Q) /CSM/VS/VSB6-C/VSB649Q.Seq.d/                        618   e-176
own update 2004.12.25
Homology vs DNA 

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

(BJ425313) Dictyostelium discoideum cDNA clone:ddv55g12, 5' ...   670   0.0    1
(BJ415822) Dictyostelium discoideum cDNA clone:ddv23i22, 5' ...   581   e-174  2
(AU266273) Dictyostelium discoideum vegetative cDNA clone:VS...   581   e-174  2
(BJ434089) Dictyostelium discoideum cDNA clone:ddv23i22, 3' ...   581   e-174  2
(BJ436458) Dictyostelium discoideum cDNA clone:ddv31a11, 3' ...   579   e-173  2
(BJ428644) Dictyostelium discoideum cDNA clone:ddv12o16, 3' ...   579   e-173  2
(AU266274) Dictyostelium discoideum vegetative cDNA clone:VS...   581   e-172  2
(BJ410481) Dictyostelium discoideum cDNA clone:ddv12o16, 5' ...   573   e-172  2
(BJ417977) Dictyostelium discoideum cDNA clone:ddv31a11, 5' ...   573   e-172  2
(AU262224) Dictyostelium discoideum vegetative cDNA clone:VS...   573   e-172  2
dna update 2008.11.30
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q75K27) RecName: Full=40S ribosomal protein S24;  &AC114258_4(A...   187   5e-48
EF081813_1(EF081813|pid:none) Picea sitchensis clone WS02710_A05...   143   5e-33
BT071133_1(BT071133|pid:none) Picea sitchensis clone WS02772_L06...   140   2e-32
BT038794_1(BT038794|pid:none) Zea mays full-length cDNA clone ZM...   140   4e-32
CS726449_1(CS726449|pid:none) Sequence 59 from Patent WO20071037...   139   7e-32
FB867894_1(FB867894|pid:none) Sequence 87167 from Patent WO20080...   137   3e-31
EF145780_1(EF145780|pid:none) Populus trichocarpa clone WS0113_F...   137   4e-31
FB867896_1(FB867896|pid:none) Sequence 87169 from Patent WO20080...   136   5e-31
AC135565_5(AC135565|pid:none) Medicago truncatula clone mth2-19b...   136   5e-31
EF145627_1(EF145627|pid:none) Populus trichocarpa clone WS0112_C...   135   8e-31
protein update 2009. 7.16
PSORT 

 psg: 0.74  gvh: 0.40  alm: 0.51  top: 0.53  tms: 0.00  mit: 0.27  mip: 0.03
 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 

	 52.0 %: nuclear
	 24.0 %: cytoplasmic
	 12.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: peroxisomal

>> prediction for VHM244 is nuc
5' end seq. ID VHM244F
5' end seq. 
>VHM244F.Seq
ATTTTTACGTCAAAATCAAAATGGATAAAGCTGCCGTCGTTGTTCGTACCAGAAAGGTCT
TAACCAACCGTGCTCCTCTCAAGAAAGCAATTCGTTGTCGAAGTTGTTCACCCAGGTAAA
GCCAACGTCTCCAAAAAAGACTTAAAAACCACCATTGCTAAACTCCACAAAGTTGCTGAC
CCAGAAACCATCTTCCTCTTTGGTTTCAAGACTGACTTCGGTGGTGGTAAATCAACTGGT
TTCGGTTTAATCTATGACAACTTAGAAATTGCCAAGAAATACGAACCAAAATACCGTCTT
GCACGTGCTGGTTTATACACTAAACCACAAACCTCAGANNNNNNNNNN
Length of 5' end seq. 348
3' end seq. ID VHM244Z
3' end seq. 
>VHM244Z.Seq
NNNNNNNNNNATTTTTACGTCAAAATCAAAATGGATAAAGCTGCCGTCGTTGTTCGTACC
AGAAAGGTCTTAACCAACCGTCTCCTCTCAAGAAAGCAATTCGTTGTCGAAGTTGTTCAC
CCAGGTAAAGCCAACGTCTCCAAAAAAGACTTAAAAACCACCATTGCTAAACTCCACAAA
GTTGCTGACCCAGAAACCATCTTCCTCTTTGGTTTCAAGACTGACTTCGGTGGTGGTAAA
TCAACTGGTTTCGGTTTAATCTATGACAACTTAGAAATTGCCAAGAAATACGAACCAAAA
TACCGTCTTGCAC
Length of 3' end seq. 313
Connected seq. ID VHM244P
Connected seq. 
>VHM244P.Seq
ATTTTTACGTCAAAATCAAAATGGATAAAGCTGCCGTCGTTGTTCGTACCAGAAAGGTCT
TAACCAACCGTGCTCCTCTCAAGAAAGCAATTCGTTGTCGAAGTTGTTCACCCAGGTAAA
GCCAACGTCTCCAAAAAAGACTTAAAAACCACCATTGCTAAACTCCACAAAGTTGCTGAC
CCAGAAACCATCTTCCTCTTTGGTTTCAAGACTGACTTCGGTGGTGGTAAATCAACTGGT
TTCGGTTTAATCTATGACAACTTAGAAATTGCCAAGAAATACGAACCAAAATACCGTCTT
GCACGTGCTGGTTTATACACTAAACCACAAACCTCAGA----------ATTTTTACGTCA
AAATCAAAATGGATAAAGCTGCCGTCGTTGTTCGTACCAGAAAGGTCTTAACCAACCGTC
TCCTCTCAAGAAAGCAATTCGTTGTCGAAGTTGTTCACCCAGGTAAAGCCAACGTCTCCA
AAAAAGACTTAAAAACCACCATTGCTAAACTCCACAAAGTTGCTGACCCAGAAACCATCT
TCCTCTTTGGTTTCAAGACTGACTTCGGTGGTGGTAAATCAACTGGTTTCGGTTTAATCT
ATGACAACTTAGAAATTGCCAAGAAATACGAACCAAAATACCGTCTTGCAC
Length of connected seq. 641
Full length Seq ID -
Full length Seq. -
Length of full length seq. -