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Dicty_cDB
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NBDC - LSDB Archive
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Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
VSJ540
Library VS
(Link to library)
Clone ID VSJ540
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U15444-1
Original site URL
Representative seq. ID VSJ540E
(Link to Original site)
Representative DNA sequence 
>VSJ540 (VSJ540Q) /CSM/VS/VSJ5-B/VSJ540Q.Seq.d/
ATCAAGTCAGAATGTCTCAAAAACAAACTAAACCAGCTGCTGCCACCAAAGCTGCTCCAG
CCAAAACCGCTGTTGCCACCACCAAATCAAAGAAAGTCGTCAAGAAGGGTGAAAAGAAAA
TCAAAACTAGAACCTTATTCAACGCCTTATACACCAAAAACGTCAAAAACTTTGGTACTG
GTTTCGGTGTTCAACCAAAGAGAGATTTAACTCATTTCACTCACTGGCCAAGATACATCA
AATTACAAAGACAAAGACGTGTTTTATTAAAGAGATTAAAGGTTCCACCAACCAATCAAC
CAATTCACCCGTGTCTTTGACAAAAACACCGCTGTCCATTTATTCAAATTATTAGATAAA
TACAGACCAGAAGAAGCCTCAGTCAAGAAAGCTAGATTATTGAAAATCGCTGAAGCCCGT
GCTGCCACTCCAAAAGGTCAAGCTGCTCCAAAAGCTGAAAAACCAGTCCAACACTTTACG
TTTCGGTATTGACTCTGTCACCAAATTAATCGAAAAGAAGAAAGCTAAATTAGTCGTCAT
TGCCCACGATGTTGACCCAGTTGAACTCGTCTTATACTTACCAACCCTCTGCAGACGTAT
GGATGTCCCATACTGTATCGTCAAATCTAAATCCAGATTAGGTGAATTAGTTCACATGAG
AAACGCTTCATGTGTTGCCCTCACTGGTGTCAACTCTGCTGACTCAAACGAACTCGCTTT
ATTAGTTGAATCCGCCAAACAAATGTTCAACAATAACAGTGAACACAGAAAGACCTGGGG
TGGTAACACTTTATCTGGTCCAGCTCGTGCTATCTTAGCCAAACGTCAAAAAGCTGAAGC
CAAAGAAAGTTTAGCCAAATCAAAGATCTAAGCTCTTTAATAGTTTAGCGAGACTCTCAC
TCTTTTTTTAAATAATCAAATAAAA
sequence update 2001. 3.26
Translated Amino Acid sequence 
ssqnvsktn*tscchqscssqnrcchhqikesrqeg*kenqn*nliqrlihqkrqklwyw
frcstkerfnsfhslakihqitktktcfikeikgstnqstnspvsltktplsiysny*in
tdqkkpqsrkldy*KSLKPVLPLQKVKLLQKLKNQSNTLRFGIDSVTKLIEKKKAKLVVI
AHDVDPVELVLYLPTLCRRMDVPYCIVKSKSRLGELVHMRNASCVALTGVNSADSNELAL
LVESAKQMFNNNSEHRKTWGGNTLSGPARAILAKRQKAEAKESLAKSKI*al**fsetlt
lflnnqik
Translated Amino Acid sequence (All Frames) 
Frame A:
ikseclknklnqllppkllqpkpllpppnqrkssrrvkrksklepystpytpktsktlvl
vsvfnqrei*lisltgqdtsnykdkdvfy*rd*rfhqpinqftrvfdkntavhlfklldk
yrpeeasvkkarllkiaearaatpkgqaapkaekpvqhftfry*lchqinrkees*isrh
cprc*ps*trliltnplqtygcpilyrqi*iqir*isshekrfmccphwcqlc*lkrtrf
is*irqtnvqq*q*tqkdlgw*hfiwssscylsqtsks*sqrkfsqikdlssliv*rdsh
sffk*snk


Frame B:
ssqnvsktn*tscchqscssqnrcchhqikesrqeg*kenqn*nliqrlihqkrqklwyw
frcstkerfnsfhslakihqitktktcfikeikgstnqstnspvsltktplsiysny*in
tdqkkpqsrkldy*KSLKPVLPLQKVKLLQKLKNQSNTLRFGIDSVTKLIEKKKAKLVVI
AHDVDPVELVLYLPTLCRRMDVPYCIVKSKSRLGELVHMRNASCVALTGVNSADSNELAL
LVESAKQMFNNNSEHRKTWGGNTLSGPARAILAKRQKAEAKESLAKSKI*al**fsetlt
lflnnqik


Frame C:
qvrmsqkqtkpaaatkaapaktavattkskkvvkkgekkiktrtlfnalytknvknfgtg
fgvqpkrdlthfthwpryiklqrqrrvllkrlkvpptnqpihpcl*qkhrcpfiqiir*i
qtrrslsqes*iienr*spcchskrsscsks*ktsptlyvsvltlspn*skrrkln*ssl
ptmltqlnssytyqpsadvwmshtvssnlnpd*vn*ft*etlhvlpslvstlltqtnsly
*lnppnkcstitvnterpgvvtlylvqlvls*pnvkklkpkkv*pnqrsklfnslarlsl
ff*iik*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSJ540 (VSJ540Q) /CSM/VS/VSJ5-B/VSJ540Q.Seq.d/                       1792   0.0
VSI829 (VSI829Q) /CSM/VS/VSI8-B/VSI829Q.Seq.d/                       1687   0.0
VSG491 (VSG491Q) /CSM/VS/VSG4-D/VSG491Q.Seq.d/                       1667   0.0
VSF364 (VSF364Q) /CSM/VS/VSF3-C/VSF364Q.Seq.d/                       1665   0.0
VSK343 (VSK343Q) /CSM/VS/VSK3-B/VSK343Q.Seq.d/                       1606   0.0
FC-187 (FC-187Q) /CSM/CG/CG-FC/FC-187Q.Seq.d/                        1455   0.0
VHC562 (VHC562Q) /CSM/VH/VHC5-C/VHC562Q.Seq.d/                       1403   0.0
FC-BA22 (FC-BA22Q) /CSM/FC/FC-BA/FC-BA22Q.Seq.d/                     1392   0.0
FC-IC1346 (FC-IC1346Q) /CSM/FC-IC/FC-IC1346Q.Seq.d/                  1376   0.0
FC-IC1585 (FC-IC1585Q) /CSM/FC-IC/FC-IC1585Q.Seq.d/                  1370   0.0
own update 2004.12.25
Homology vs DNA 

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

AC116100|AC116100.2 Dictyostelium discoideum chromosome 2 map 6163571-6199719 strain AX4, complete sequence.   668  0.0  6
BQ476680|BQ476680.1 curculio4h01.g Curculio glandium cDNA Curculio glandium cDNA clone curculio4h01 3', mRNA sequence.    54  2e-08  3
BQ476431|BQ476431.1 curculio4h01.b Curculio glandium cDNA Curculio glandium cDNA clone curculio4h01 5', mRNA sequence.    54  2e-06  2
BQ623728|BQ623728.1 USDA-FP_00819 Ridge pineapple sweet orange entire seedling Citrus sinensis cDNA clone USDA-FP_00819 5', mRNA sequence.    56  5e-06  2
CA755632| (Y15171) ribosomal protein L7a [Takifugu rubripes], mRNA sequence.    60  5e-05  1
AJ457342|AJ457342.1 Oryzias latipes EST, clone 631-134-12-N.      38  5e-04  3
CA845440|CA845440.1 hab99h11.y1 Fugu hgmpD adult gut Takifugu rubripes cDNA clone IMAGE:6356972 5' similar to SW:RL7A_FUGRU O57592 60S RIBOSOMAL PROTEIN L7A ;, mRNA sequence.    46  9e-04  2
CA330639|CA330639.1 hab08d06.y1 Fugu hgmpJ adult kidney Takifugu rubripes cDNA clone 6362938 5' similar to SW:RL7A_FUGRU O57592 60S RIBOSOMAL PROTEIN L7A ;, mRNA sequence.    46  0.001  2
CA846589|CA846589.1 hab83c10.y1 Fugu hgmpC adult gill Takifugu rubripes cDNA clone IMAGE:6355194 5' similar to SW:RL7A_FUGRU O57592 60S RIBOSOMAL PROTEIN L7A ;, mRNA sequence.    46  0.001  2
CA330747|CA330747.1 haa65h09.y2 Fugu hgmpF adult brain Takifugu rubripes cDNA clone 6358888 5' similar to SW:RL7A_FUGRU O57592 60S RIBOSOMAL PROTEIN L7A ;, mRNA sequence.    46  0.001  2
dna update 2003. 7.20
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54ZD1) RecName: Full=60S ribosomal protein L7a;                     234   e-109
AY769275_1(AY769275|pid:none) Bombyx mori ribosomal protein L7A ...   138   3e-50
DQ440224_1(DQ440224|pid:none) Aedes aegypti clone AET-254 riboso...   134   6e-49
EU934303_1(EU934303|pid:none) TSA: Anopheles darlingi AD-165 60S...   132   7e-49
BC122243_1(BC122243|pid:none) Danio rerio zgc:153325, mRNA (cDNA...   133   4e-48
EU259814_1(EU259814|pid:none) Spodoptera exigua ribosomal protei...   132   6e-48
(O76732) RecName: Full=60S ribosomal protein L7a;                     134   6e-47
EU124958_1(EU124958|pid:none) Arenicola marina ribosomal protein...   128   1e-46
X82782_1(X82782|pid:none) D.melanogaster rpL7a gene.                  119   2e-46
BC118908_1(BC118908|pid:none) Xenopus tropicalis hypothetical pr...   129   2e-46
protein update 2009. 3.25
PSORT 

 psg: 0.55  gvh: 0.35  alm: 0.36  top: 0.53  tms: 0.00  mit: 0.36  mip: 0.05
 nuc: 0.00  erl: 0.00  erm: 0.40  pox: 0.30  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 

	 76.0 %: cytoplasmic
	 24.0 %: mitochondrial

>> prediction for VSJ540 is cyt
5' end seq. ID VSJ540F
5' end seq. 
>VSJ540F.Seq
ATCAAGTCAGAATGTCTCAAAAACAAACTAAACCAGCTGCTGCCACCAAAGCTGCTCCAG
CCAAAACCGCTGTTGCCACCACCAAATCAAAGAAAGTCGTCAAGAAGGGTGAAAAGAAAA
TCAAAACTAGAACCTTATTCAACGCCTTATACACCAAAAACGTCAAAAACTTTGGTACTG
GTTTCGGTGTTCAACCAAAGAGAGATTTAACTCATTTCACTCACTGGCCAAGATACATCA
AATTACAAAGACAAAGACGTGTTTTATTAAAGAGATTAAAGGTTCCACCAACAATCAACC
AATTCACCCGTGTCTTTGACAAAAACACCGCTGTCCATTTATTCAAATTATTAGATAAAT
ACAGACCAGAAGAAGCCTCAGTCAAGAAAGCTAGATTATTGAAAATCGCTGAAGCCCGTG
CTGCCACTCCAAAAGGTCAAGCTGCTCCAAAAGCTGAAAAACCAGTCCAACACTTTACGT
TTCGGTATTGACTCTGTCACCAAATTAATCGAAAAGAAGAAAGCTAAATTAGTCGTCATT
GCCCACGATGTTGACCCAGTTGAACTCGTCTTATACTTACCAACCCTCTGCAGACGTATG
GATGTCCCATACTGTATCGTCAAATCTAAATCCA----------
Length of 5' end seq. 634
3' end seq. ID VSJ540Z
3' end seq. 
>VSJ540Z.Seq
----------CCACCAACCAATCAACCAATTCACCCGTGTCTTTGACAAAAACACCGCTG
TCCATTTATTCAAATTATTAGATAAATACAGACCAGAAGAAGCCTCAGTCAAGAAAGCTA
GATTATTGAAAATCGCTGAAGCCCGTGCTGCCACTCCAAAAGGTCAAGCTGCTCCAAAAG
CTGAAAAACCAGTCCAACACTTACGTTTCGGTATTGACTCTGTCACCAAATTAATCGAAA
AGAAGAAAGCTAAATTAGTCGTCATTGCCCACGATGTTGACCCAGTTGAACTCGTCTTAT
ACTTACCAACCCTCTGCAGACGTATGGATGTCCCATACTGTATCGTCAAATCTAAATCCA
GATTAGGTGAATTAGTTCACATGAGAAACGCTTCATGTGTTGCCCTCACTGGTGTCAACT
CTGCTGACTCAAACGAACTCGCTTTATTAGTTGAATCCGCCAAACAAATGTTCAACAATA
ACAGTGAACACAGAAAGACCTGGGGTGGTAACACTTTATCTGGTCCAGCTCGTGCTATCT
TAGCCAAACGTCAAAAAGCTGAAGCCAAAGAAAGTTTAGCCAAATCAAAGATCTAAGCTC
TTTAATAGTTTAGCGAGACTCTCACTCTTTTTTTAAATAATCAAATAAAA
Length of 3' end seq. 640
Connected seq. ID VSJ540P
Connected seq. 
>VSJ540P.Seq
ATCAAGTCAGAATGTCTCAAAAACAAACTAAACCAGCTGCTGCCACCAAAGCTGCTCCAG
CCAAAACCGCTGTTGCCACCACCAAATCAAAGAAAGTCGTCAAGAAGGGTGAAAAGAAAA
TCAAAACTAGAACCTTATTCAACGCCTTATACACCAAAAACGTCAAAAACTTTGGTACTG
GTTTCGGTGTTCAACCAAAGAGAGATTTAACTCATTTCACTCACTGGCCAAGATACATCA
AATTACAAAGACAAAGACGTGTTTTATTAAAGAGATTAAAGGTTCCACCAACAATCAACC
AATTCACCCGTGTCTTTGACAAAAACACCGCTGTCCATTTATTCAAATTATTAGATAAAT
ACAGACCAGAAGAAGCCTCAGTCAAGAAAGCTAGATTATTGAAAATCGCTGAAGCCCGTG
CTGCCACTCCAAAAGGTCAAGCTGCTCCAAAAGCTGAAAAACCAGTCCAACACTTTACGT
TTCGGTATTGACTCTGTCACCAAATTAATCGAAAAGAAGAAAGCTAAATTAGTCGTCATT
GCCCACGATGTTGACCCAGTTGAACTCGTCTTATACTTACCAACCCTCTGCAGACGTATG
GATGTCCCATACTGTATCGTCAAATCTAAATCCA----------CCACCAACCAATCAAC
CAATTCACCCGTGTCTTTGACAAAAACACCGCTGTCCATTTATTCAAATTATTAGATAAA
TACAGACCAGAAGAAGCCTCAGTCAAGAAAGCTAGATTATTGAAAATCGCTGAAGCCCGT
GCTGCCACTCCAAAAGGTCAAGCTGCTCCAAAAGCTGAAAAACCAGTCCAACACTTACGT
TTCGGTATTGACTCTGTCACCAAATTAATCGAAAAGAAGAAAGCTAAATTAGTCGTCATT
GCCCACGATGTTGACCCAGTTGAACTCGTCTTATACTTACCAACCCTCTGCAGACGTATG
GATGTCCCATACTGTATCGTCAAATCTAAATCCAGATTAGGTGAATTAGTTCACATGAGA
AACGCTTCATGTGTTGCCCTCACTGGTGTCAACTCTGCTGACTCAAACGAACTCGCTTTA
TTAGTTGAATCCGCCAAACAAATGTTCAACAATAACAGTGAACACAGAAAGACCTGGGGT
GGTAACACTTTATCTGGTCCAGCTCGTGCTATCTTAGCCAAACGTCAAAAAGCTGAAGCC
AAAGAAAGTTTAGCCAAATCAAAGATCTAAGCTCTTTAATAGTTTAGCGAGACTCTCACT
CTTTTTTTAAATAATCAAATAAAA
Length of connected seq. 1274
Full length Seq ID VSJ540E
Full length Seq. 
>VSJ540E.Seq
ATCAAGTCAGAATGTCTCAAAAACAAACTAAACCAGCTGCTGCCACCAAAGCTGCTCCAG
CCAAAACCGCTGTTGCCACCACCAAATCAAAGAAAGTCGTCAAGAAGGGTGAAAAGAAAA
TCAAAACTAGAACCTTATTCAACGCCTTATACACCAAAAACGTCAAAAACTTTGGTACTG
GTTTCGGTGTTCAACCAAAGAGAGATTTAACTCATTTCACTCACTGGCCAAGATACATCA
AATTACAAAGACAAAGACGTGTTTTATTAAAGAGATTAAAGGTTCCACCAACCAATCAAC
CAATTCACCCGTGTCTTTGACAAAAACACCGCTGTCCATTTATTCAAATTATTAGATAAA
TACAGACCAGAAGAAGCCTCAGTCAAGAAAGCTAGATTATTGAAAATCGCTGAAGCCCGT
GCTGCCACTCCAAAAGGTCAAGCTGCTCCAAAAGCTGAAAAACCAGTCCAACACTTTACG
TTTCGGTATTGACTCTGTCACCAAATTAATCGAAAAGAAGAAAGCTAAATTAGTCGTCAT
TGCCCACGATGTTGACCCAGTTGAACTCGTCTTATACTTACCAACCCTCTGCAGACGTAT
GGATGTCCCATACTGTATCGTCAAATCTAAATCCAGATTAGGTGAATTAGTTCACATGAG
AAACGCTTCATGTGTTGCCCTCACTGGTGTCAACTCTGCTGACTCAAACGAACTCGCTTT
ATTAGTTGAATCCGCCAAACAAATGTTCAACAATAACAGTGAACACAGAAAGACCTGGGG
TGGTAACACTTTATCTGGTCCAGCTCGTGCTATCTTAGCCAAACGTCAAAAAGCTGAAGC
CAAAGAAAGTTTAGCCAAATCAAAGATCTAAGCTCTTTAATAGTTTAGCGAGACTCTCAC
TCTTTTTTTAAATAATCAAATAAAA
Length of full length seq. 925