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
VHA679
Library VH
(Link to library)
Clone ID VHA679
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13538-1
Original site URL
Representative seq. ID VHA679P
(Link to Original site)
Representative DNA sequence 
>VHA679 (VHA679Q) /CSM/VH/VHA6-D/VHA679Q.Seq.d/
CGGTTGAAAGAAAGAATACTCCAAAAGATCGTAACTACGGTTACCTTCTGTAAGGAGTGC
CCGAATCATGAGAACTCTGTTTCGAAAGGATTTGCGGTTGAGCACCTAGAATGGGACCCG
AAAGGTTGTGAACTATGCCTGAGGAAGGCGAAGTCAGGGGAAACTCTGATGGAGGCTTGT
CGCAATGCTGACGTGCAAATCGCTTGTCTAACTTGGGTATAGGGGCGAAAGACTAATCGA
ACAACCTAGTAGCTGGTTCCTTCCGAAGTTTCCCTCAGGATAGCTGGAGCAGTATTCTAG
TTCCATCTTGTAAAGACAATGATTAGCAGTTTCGGGGGCGTAATGCTCTCAGCTGATTCT
CAAACTCTGAACGGGTGGGTATCATTTTAATTCACTTAATTGGATTTTAAAATTAAATTG
CACATGTGCAATGAAAAATAGGAGCTCTTAGTGGGCCATTTTTGGTAAGCAGAACTGGCG
ATGTGGGTTGAACCAAATATTGGGATAAGACGTCTAACATTCACTAATAGATACCACAAA
AGGTGTTAGTTCATTAAGACAXXXXXXXXXXGGGGGACCACTTTCAACTTTAAACCATAT
GATTAATCGCTGTTACACTGCAGTTTCNTTCCGGGTTATTGTGGTGGGTGGCTAAATTCT
AATTTATATCCTCGTTCCGCTCAACTCTTCGATTGTAGACGACTATCAAATGAACTAGGT
GCTGTAAGCTTCCGAGTAGCGTTCAGTTACGAGGGGTTGAGGCTTTTCCATTAGTTCTTT
CTTGTACATACAAAAGATGGCCACCACTGCTGTTACCCTTAAAGACGTCTGCCCACAAGA
ATTCATTGCTACCTACGCAAGATTCTTAAAGAAAACTGGTCGTGTTCAAATCCCAAAATG
GAATGATATCGCCAAAACTGCCACCTACAGAGAACTCCCACCAACCAACCCAGATTGGAT
TTACTACAGAATTGCCACCCTTGCCCGTAAAGTTTACATCCGTGGTGGTGATGGTGTTGC
AACCTATAGAAGAGTTTTCGGTGGTAACCGTAGAAACGGTGTCAGACCAAATCACTTTGC
CGATGTCAATGGTGGAAACATCCGTCATTGTTTAAAACAATTACAAAACTTAAAAGTCAT
TGAAACCGACGCTGTCAAAGGTGGTCGTACCATCACTGCTACCGGCCGTAGAGATCTCGA
CAGAATCGCCAAGCAAATCTATGACAAAAAAAACAAAATCTAAATAATCACGATTTAAGT
ATTTAAATGTTTTGCAACAAAGNATTAACAAAATATAATAAAAAC
sequence update 2002.10.25
Translated Amino Acid sequence 
g*kkeyskrs*lrlpsvrsarimrtlfrkdlrlst*ngtrkvvnya*grrsqgkl*wrlv
amltckslv*lgyrgerlieqpsswflpkfpsg*leqysssil*rq*lavsga*csqlil
kl*tggyhfnslnwilklnctcamknrss*waifgkqnwrcglnqilg*dv*HSLIDTTK
GVSSLR---

---GGPLSTLNHMINRCYTAVSFRVIVVGG*iliyilvplnssivddyqmn*vl*ase*r
svtrg*gfsissflyiqkmattavtlkdvcpqefiatyarflkktgrvqipkwndiakta
tyrelpptnpdwiyyriatlarkvyirggdgvatyrrvfggnrrngvrpnhfadvnggni
rhclkqlqnlkvietdavkggrtitatgrrdldriakqiydkknki*iiti*vfkcfatk
x*qniik
Translated Amino Acid sequence (All Frames) 
Frame A:
rlkerilqkivttvtfckecpnhensvskgfavehlewdpkgcelclrkaksgetlmeac
rnadvqiacltwv*grktnrtt**lvpsevslriagavf*fhlvktmissfggvmlsads
qtlngwvsf*ft*ldfkiklhmcnek*ellvghfw*aelamwvepnigirrltftnryhk
rc*fikt---

---GGPLSTLNHMINRCYTAVSFRVIVVGG*iliyilvplnssivddyqmn*vl*ase*r
svtrg*gfsissflyiqkmattavtlkdvcpqefiatyarflkktgrvqipkwndiakta
tyrelpptnpdwiyyriatlarkvyirggdgvatyrrvfggnrrngvrpnhfadvnggni
rhclkqlqnlkvietdavkggrtitatgrrdldriakqiydkknki*iiti*vfkcfatk
x*qniik

Frame B:
g*kkeyskrs*lrlpsvrsarimrtlfrkdlrlst*ngtrkvvnya*grrsqgkl*wrlv
amltckslv*lgyrgerlieqpsswflpkfpsg*leqysssil*rq*lavsga*csqlil
kl*tggyhfnslnwilklnctcamknrss*waifgkqnwrcglnqilg*dv*HSLIDTTK
GVSSLR---

---gdhfql*ti*liavtlqfxsgllwwvakf*fissfrstlrl*ttik*trccklpssv
qlrgveafplvlsctykrwpplllplktsahknsllptqds*rklvvfksqngmispklp
ptenshqptqigfttelpplpvkftsvvvmvlqpieefsvvtvetvsdqitlpmsmvets
viv*nnykt*kslkptlskvvvpsllpaveistespsksmtkktksk*srfkylnvlqqx
inki**k

Frame C:
verkntpkdrnygyll*gvpes*elcfericg*aprmgperl*tmpeegevrgnsdggls
qc*ranrlsnlgigakd*snnlvagsfrsfpqdswssilvpsckdnd*qfrgrnals*fs
nservgiilihligf*n*iahvq*kigalsgpflvsrtgdvg*tkywdktsnih**ipqk
vlvh*d---

---gttfnfkpyd*sllhcsfxpgycggwlnsnlyprsaqlfdcrrlsnelgavsfrvaf
syeglrlfh*fflvhtkdghhccyp*rrlptrihcylrkilkenwscsnpkme*yrqnch
lqrtptnqprldllqnchpcp*slhpww*wccnl*ksfrw*p*krcqtkslcrcqwwkhp
slfktitklksh*nrrcqrwsyhhcyrp*rsrqnrqanl*qkkqnlnnhdlsi*mfcnkx
ltkynkn
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHA679 (VHA679Q) /CSM/VH/VHA6-D/VHA679Q.Seq.d/                       2468   0.0
VHH677 (VHH677Q) /CSM/VH/VHH6-D/VHH677Q.Seq.d/                       1106   0.0
VHA617 (VHA617Q) /CSM/VH/VHA6-A/VHA617Q.Seq.d/                       1106   0.0
SHL405 (SHL405Q) /CSM/SH/SHL4-A/SHL405Q.Seq.d/                       1106   0.0
AHF142 (AHF142Q) /CSM/AH/AHF1-B/AHF142Q.Seq.d/                       1106   0.0
AHB593 (AHB593Q) /CSM/AH/AHB5-D/AHB593Q.Seq.d/                       1100   0.0
VHC874 (VHC874Q) /CSM/VH/VHC8-D/VHC874Q.Seq.d/                       1098   0.0
VHM686 (VHM686Q) /CSM/VH/VHM6-D/VHM686Q.Seq.d/                       1098   0.0
VHK158 (VHK158Q) /CSM/VH/VHK1-C/VHK158Q.Seq.d/                       1098   0.0
own update 2009. 4. 4
Homology vs DNA 

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

AY171066|AY171066.1 Dictyostelium discoideum extrachromosomal palindromic ribosomal RNA gene sequence, central segment.  1106   0.0    1
X00601|X00601.1 Dictyostelium discoideum ribosomal RNA gene.     1090   0.0    1
DQ340385|DQ340385.1 Dictyostelium citrinum 17S ribosomal RNA, 5.8S ribosomal RNA, 26S ribosomal RNA, and 5S ribosomal RNA genes, complete sequence.  1059   0.0    3
DQ340386|DQ340386.1 Dictyostelium purpureum 17S ribosomal RNA, 5.8S ribosomal RNA, 26S ribosomal RNA, and 5S ribosomal RNA genes, complete sequence.   607   0.0    6
DQ340387|DQ340387.1 Dictyostelium polycephalum 17S ribosomal RNA, 5.8S ribosomal RNA, and 26S ribosomal RNA genes, complete sequence.   303   e-148  6
EC761274|EC761274.1 PSE00008313 rw_mgpallid Polysphondylium pallidum cDNA, mRNA sequence.   299   e-131  5
EC761325|EC761325.1 PSE00000969 rw_mgpallid Polysphondylium pallidum cDNA, mRNA sequence.   299   e-131  5
EC761518|EC761518.1 PSE00006555 rw_mgpallid Polysphondylium pallidum cDNA, mRNA sequence.   299   e-131  5
EC761617|EC761617.1 PSE00001701 rw_mgpallid Polysphondylium pallidum cDNA, mRNA sequence.   299   e-131  5
EC761917|EC761917.1 PSE00002132 rw_mgpallid Polysphondylium pallidum cDNA, mRNA sequence.   299   e-131  5
dna update 2007. 3.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54X51) RecName: Full=40S ribosomal protein S19;                     252   2e-65
AM482118_1(AM482118|pid:none) Vitis vinifera contig VV78X156932....   140   1e-31
AC149197_14(AC149197|pid:none) Medicago truncatula clone mth2-33...   135   2e-30
(Q9FNP8) RecName: Full=40S ribosomal protein S19-3;  &AB006696_1...   134   9e-30
(Q9SGA6) RecName: Full=40S ribosomal protein S19-1;  &AC011664_1...   133   2e-29
EF081977_1(EF081977|pid:none) Picea sitchensis clone WS02724_L19...   132   3e-29
AM458569_1(AM458569|pid:none) Vitis vinifera contig VV78X180401....   131   5e-29
BT038863_1(BT038863|pid:none) Zea mays full-length cDNA clone ZM...   131   6e-29
EF575851_1(EF575851|pid:none) Oryza sativa (indica cultivar-grou...   130   1e-28
(P40978) RecName: Full=40S ribosomal protein S19;  &AC114983_12(...   129   2e-28
protein update 2009. 6.26
PSORT 

 psg: 0.73  gvh: 0.41  alm: 0.43  top: 0.53  tms: 0.00  mit: 0.42  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.00  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 %: mitochondrial
	 28.0 %: nuclear
	 12.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for VHA679 is mit
5' end seq. ID VHA679F
5' end seq. 
>VHA679F.Seq
CGGTTGAAAGAAAGAATACTCCAAAAGATCGTAACTACGGTTACCTTCTGTAAGGAGTGC
CCGAATCATGAGAACTCTGTTTCGAAAGGATTTGCGGTTGAGCACCTAGAATGGGACCCG
AAAGGTTGTGAACTATGCCTGAGGAAGGCGAAGTCAGGGGAAACTCTGATGGAGGCTTGT
CGCAATGCTGACGTGCAAATCGCTTGTCTAACTTGGGTATAGGGGCGAAAGACTAATCGA
ACAACCTAGTAGCTGGTTCCTTCCGAAGTTTCCCTCAGGATAGCTGGAGCAGTATTCTAG
TTCCATCTTGTAAAGACAATGATTAGCAGTTTCGGGGGCGTAATGCTCTCAGCTGATTCT
CAAACTCTGAACGGGTGGGTATCATTTTAATTCACTTAATTGGATTTTAAAATTAAATTG
CACATGTGCAATGAAAAATAGGAGCTCTTAGTGGGCCATTTTTGGTAAGCAGAACTGGCG
ATGTGGGTTGAACCAAATATTGGGATAAGACGTCTAACATTCACTAATAGATACCACAAA
AGGTGTTAGTTCATTAAGACANNNNNNNNNN
Length of 5' end seq. 571
3' end seq. ID VHA679Z
3' end seq. 
>VHA679Z.Seq
NNNNNNNNNNGGGGGACCACTTTCAACTTTAAACCATATGATTAATCGCTGTTACACTGC
AGTTTCNTTCCGGGTTATTGTGGTGGGTGGCTAAATTCTAATTTATATCCTCGTTCCGCT
CAACTCTTCGATTGTAGACGACTATCAAATGAACTAGGTGCTGTAAGCTTCCGAGTAGCG
TTCAGTTACGAGGGGTTGAGGCTTTTCCATTAGTTCTTTCTTGTACATACAAAAGATGGC
CACCACTGCTGTTACCCTTAAAGACGTCTGCCCACAAGAATTCATTGCTACCTACGCAAG
ATTCTTAAAGAAAACTGGTCGTGTTCAAATCCCAAAATGGAATGATATCGCCAAAACTGC
CACCTACAGAGAACTCCCACCAACCAACCCAGATTGGATTTACTACAGAATTGCCACCCT
TGCCCGTAAAGTTTACATCCGTGGTGGTGATGGTGTTGCAACCTATAGAAGAGTTTTCGG
TGGTAACCGTAGAAACGGTGTCAGACCAAATCACTTTGCCGATGTCAATGGTGGAAACAT
CCGTCATTGTTTAAAACAATTACAAAACTTAAAAGTCATTGAAACCGACGCTGTCAAAGG
TGGTCGTACCATCACTGCTACCGGCCGTAGAGATCTCGACAGAATCGCCAAGCAAATCTA
TGACAAAAAAAACAAAATCTAAATAATCACGATTTAAGTATTTAAATGTTTTGCAACAAA
GNATTAACAAAATATAATAAAAAC
Length of 3' end seq. 744
Connected seq. ID VHA679P
Connected seq. 
>VHA679P.Seq
CGGTTGAAAGAAAGAATACTCCAAAAGATCGTAACTACGGTTACCTTCTGTAAGGAGTGC
CCGAATCATGAGAACTCTGTTTCGAAAGGATTTGCGGTTGAGCACCTAGAATGGGACCCG
AAAGGTTGTGAACTATGCCTGAGGAAGGCGAAGTCAGGGGAAACTCTGATGGAGGCTTGT
CGCAATGCTGACGTGCAAATCGCTTGTCTAACTTGGGTATAGGGGCGAAAGACTAATCGA
ACAACCTAGTAGCTGGTTCCTTCCGAAGTTTCCCTCAGGATAGCTGGAGCAGTATTCTAG
TTCCATCTTGTAAAGACAATGATTAGCAGTTTCGGGGGCGTAATGCTCTCAGCTGATTCT
CAAACTCTGAACGGGTGGGTATCATTTTAATTCACTTAATTGGATTTTAAAATTAAATTG
CACATGTGCAATGAAAAATAGGAGCTCTTAGTGGGCCATTTTTGGTAAGCAGAACTGGCG
ATGTGGGTTGAACCAAATATTGGGATAAGACGTCTAACATTCACTAATAGATACCACAAA
AGGTGTTAGTTCATTAAGACA----------GGGGGACCACTTTCAACTTTAAACCATAT
GATTAATCGCTGTTACACTGCAGTTTCNTTCCGGGTTATTGTGGTGGGTGGCTAAATTCT
AATTTATATCCTCGTTCCGCTCAACTCTTCGATTGTAGACGACTATCAAATGAACTAGGT
GCTGTAAGCTTCCGAGTAGCGTTCAGTTACGAGGGGTTGAGGCTTTTCCATTAGTTCTTT
CTTGTACATACAAAAGATGGCCACCACTGCTGTTACCCTTAAAGACGTCTGCCCACAAGA
ATTCATTGCTACCTACGCAAGATTCTTAAAGAAAACTGGTCGTGTTCAAATCCCAAAATG
GAATGATATCGCCAAAACTGCCACCTACAGAGAACTCCCACCAACCAACCCAGATTGGAT
TTACTACAGAATTGCCACCCTTGCCCGTAAAGTTTACATCCGTGGTGGTGATGGTGTTGC
AACCTATAGAAGAGTTTTCGGTGGTAACCGTAGAAACGGTGTCAGACCAAATCACTTTGC
CGATGTCAATGGTGGAAACATCCGTCATTGTTTAAAACAATTACAAAACTTAAAAGTCAT
TGAAACCGACGCTGTCAAAGGTGGTCGTACCATCACTGCTACCGGCCGTAGAGATCTCGA
CAGAATCGCCAAGCAAATCTATGACAAAAAAAACAAAATCTAAATAATCACGATTTAAGT
ATTTAAATGTTTTGCAACAAAGNATTAACAAAATATAATAAAAAC
Length of connected seq. 1295
Full length Seq ID -
Full length Seq. -
Length of full length seq. -