VSD248
Library VS
(Link to library)
Clone ID VSD248
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15096-1
Original site URL
Representative seq. ID VSD248P
(Link to Original site)
Representative DNA sequence
>VSD248 (VSD248Q) /CSM/VS/VSD2-B/VSD248Q.Seq.d/
CGCGTCCGCAATCCTTTATATTCGTGCGAAATCTTTAGGCATCATCAAAATGAAATACTT
AGCTGCTTACCTCTTAGCTTCCTTATCAGGCAATGCCAACGCTGCCTCAGTCACCAAGAT
TTTACAATCTGTTGGTGTTGAAGTTGATGCTGCTCGTGTCGAATCTGTCTGCAAAGAATT
AGACGGTAAAGACGTCCAAGCCTTAATTGCCGCCGGTAAATCTAAAGTTGGTTCAGTTGC
CGCTGCCGCCGCCCCAGCTGCTGCCACCTCTGCTGCCCCAGCTGCTGCTGCCGCTGCCCC
AGCCAAAAAAGTTGTTGAAGAGAAAAAAGAAGAATCAGACGACGATATGGGTATGGGTTT
ATTCGACTAAAAAGACAACTAATATGAGCAAACTATTATTAGAATGCTTATAGGCAGTTT
CCTATAGTATTTATAAAAAGAAAAATAAAAAAAAATAAAAATATAAAAAAAAAAXXXXXX
XXXXCAATCCTTTATATTCGTCGAAATCTTTAGGCATCATCAAAATGAAATACTTAGCTG
CTTACCTCTTAGCTTCCTTATCAGGCAATGCCAACGCTGCCTCAGTCACCAAGATTTTAC
AATCTGTTGGTGTTGAAGTTGATGCTGCTCGTGTCGAATCTGTCTGCAAAGAATTAGACG
GTAAAGACGTCCAAGCCTTAATTGCCGCCGGTAAATCTAAAGTTGGTTCAGTTGCCGCTG
CCGCCGCCCCAGCTGCTGCCACCTCTGCTGCCCCAGCTGCTGCTGCCGCTGCCCCAGCCA
AAAAAGTTGTTGAAGAGAAAAAAGAAGAATCAGACGACGATATGGGTATGGGTTTATTCG
ACTAAAAAGACAACTAATATGAGCAAACTATTATTAGAATGCTTATAGGCAGTTTCCTAT
AGTATTTATAAAAAGAAAAATAAAAAAA
sequence update 2001. 3.22
Translated Amino Acid sequence
rvrnplysceifrhhqneilsclplsflirqcqrclshqdfticwc*s*ccscriclqri
rr*rrpslncrr*i*swfscrcrrpscchlccpscccrcpsqksc*rekrrirrrygygf
irlkrqli*anyy*NAYRQFPIVFIKRKIKKNKNIKKK---

---NPLYSSKSLGIIKMKYLAAYLLASLSGNANAASVTKILQSVGVEVDAARVESVCKEL
DGKDVQALIAAGKSKVGSVAAAAAPAAATSAAPAAAAAAPAKKVVEEKKEESDDDMGMGL
FD*kdn*yeqtiirmligsfl*yl*kek*k


Translated Amino Acid sequence (All Frames)
Frame A:
rvrnplysceifrhhqneilsclplsflirqcqrclshqdfticwc*s*ccscriclqri
rr*rrpslncrr*i*swfscrcrrpscchlccpscccrcpsqksc*rekrrirrrygygf
irlkrqli*anyy*NAYRQFPIVFIKRKIKKNKNIKKK---

---qsfifveifrhhqneilsclplsflirqcqrclshqdfticwc*s*ccscriclqri
rr*rrpslncrr*i*swfscrcrrpscchlccpscccrcpsqksc*rekrrirrrygygf
irlkrqli*anyy*nayrqfpivfikrkikk

Frame B:
asailyirakslgiikmkylaayllaslsgnanaasvtkilqsvgvevdaarvesvckel
dgkdvqaliaagkskvgsvaaaaapaaatsaapaaaaaapakkvveekkeesdddmgmgl
fd*kdn*yeqtiirmligsfl*yl*kek*kkiki*kk---

---NPLYSSKSLGIIKMKYLAAYLLASLSGNANAASVTKILQSVGVEVDAARVESVCKEL
DGKDVQALIAAGKSKVGSVAAAAAPAAATSAAPAAAAAAPAKKVVEEKKEESDDDMGMGL
FD*kdn*yeqtiirmligsfl*yl*kek*k

Frame C:
rpqsfifvrnl*assk*nt*llts*lpyqamptlpqsprfynllvlklmllvsnlsakn*
tvktskp*lppvnlklvqlplpppqllppllpqlllplpqpkkllkrkkknqttiwvwvy
stkkttnmsklllecl*avsysiykkknkkk*kykkk---

---ilyirrnl*assk*nt*llts*lpyqamptlpqsprfynllvlklmllvsnlsakn*
tvktskp*lppvnlklvqlplpppqllppllpqlllplpqpkkllkrkkknqttiwvwvy
stkkttnmsklllecl*avsysiykkknkk

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VSD248 (VSD248Q) /CSM/VS/VSD2-B/VSD248Q.Seq.d/ 507 e-143
VSG877 (VSG877Q) /CSM/VS/VSG8-D/VSG877Q.Seq.d/ 490 e-137
VFL744 (VFL744Q) /CSM/VF/VFL7-B/VFL744Q.Seq.d/ 490 e-137
VFI795 (VFI795Q) /CSM/VF/VFI7-D/VFI795Q.Seq.d/ 490 e-137
VFD355 (VFD355Q) /CSM/VF/VFD3-C/VFD355Q.Seq.d/ 490 e-137
VSH402 (VSH402Q) /CSM/VS/VSH4-A/VSH402Q.Seq.d/ 480 e-134
VSC527 (VSC527Q) /CSM/VS/VSC5-B/VSC527Q.Seq.d/ 480 e-134
VSE496 (VSE496Q) /CSM/VS/VSE4-D/VSE496Q.Seq.d/ 476 e-133
VHB419 (VHB419Q) /CSM/VH/VHB4-A/VHB419Q.Seq.d/ 476 e-133
VSG117 (VSG117Q) /CSM/VS/VSG1-A/VSG117Q.Seq.d/ 460 e-128

own update 2004.12.25
Homology vs DNA

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

X56192|X56192.1 D. discoideum mRNA for ribosomal acidic phosphoprotein P2. 490 0.0 3
X56193|X56193.1 D. discoideum mRNA for ribosomal acidic phosphoprotein P1. 76 5e-18 3
AF317662|AF317662.1 Candida albicans 60S acidic ribosomal protein type P2-B (p2B) gene, complete cds. 48 3e-09 3
X06958|X06958.1 Yeast mRNA for ribosomal protein A2. 52 6e-09 2
J03760|J03760.1 Yeast (S.cerevisiae) ribosomal protein L44 gene, complete cds. 52 1e-08 2
M26503|M26503.1 S.cerevisiae L12eIB protein gene, complete cds. 52 1e-08 2
Z74781|Z74781.1 S.cerevisiae chromosome XV reading frame ORF YOL039w. 52 2e-08 2
AL392317|AL392317.1 T3 end of clone AR0AA003F10 of library AR0AA from strain CBS 732 of Zygosaccharomyces rouxii. 56 8e-04 1
AF317661|AF317661.1 Candida albicans 60S acidic ribosomal protein type P2-A (p2A) gene, complete cds. 40 0.001 2
BE581235|BE581235.1 kq44a10.y1 TBN95TM-SSR Strongyloides stercoralis cDNA 5' similar to SW:RLA2_BOVIN P42899 60S ACIDIC RIBOSOMAL PROTEIN P2. ;, mRNA sequence. 42 0.003 2
dna update 2003. 8.21
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

CR382132_246(CR382132|pid:none) Yarrowia lipolytica strain CLIB1... 41 0.051
Y09056_1(Y09056|pid:none) C.capitata rpp2 gene. 40 0.11
FN392319_1282(FN392319|pid:none) Pichia pastoris GS115 chromosom... 40 0.15
BC135754_1(BC135754|pid:none) Xenopus tropicalis ribosomal prote... 39 0.25
EU934304_1(EU934304|pid:none) TSA: Anopheles darlingi AD-120 60S... 39 0.25
X05466_1(X05466|pid:none) Drosophila melanogaster mRNA for r rib... 39 0.25
AY119253_1(AY119253|pid:none) Drosophila melanogaster SD22208 fu... 39 0.25
FM992690_436(FM992690|pid:none) Candida dubliniensis CD36 chromo... 38 0.56
(P51408) RecName: Full=60S acidic ribosomal protein P2; &S32038... 37 0.73
AK340932_1(AK340932|pid:none) Acyrthosiphon pisum ACYPI000040 mR... 37 0.73
protein update 2009. 7.29
PSORT

psg: 0.79 gvh: 0.71 alm: 0.38 top: 0.53 tms: 0.00 mit: 0.42 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

40.0 %: mitochondrial
32.0 %: nuclear
12.0 %: cytoplasmic
8.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: extracellular, including cell wall

>> prediction for VSD248 is mit

5' end seq. ID VSD248F
5' end seq.
>VSD248F.Seq
CGCGTCCGCAATCCTTTATATTCGTGCGAAATCTTTAGGCATCATCAAAATGAAATACTT
AGCTGCTTACCTCTTAGCTTCCTTATCAGGCAATGCCAACGCTGCCTCAGTCACCAAGAT
TTTACAATCTGTTGGTGTTGAAGTTGATGCTGCTCGTGTCGAATCTGTCTGCAAAGAATT
AGACGGTAAAGACGTCCAAGCCTTAATTGCCGCCGGTAAATCTAAAGTTGGTTCAGTTGC
CGCTGCCGCCGCCCCAGCTGCTGCCACCTCTGCTGCCCCAGCTGCTGCTGCCGCTGCCCC
AGCCAAAAAAGTTGTTGAAGAGAAAAAAGAAGAATCAGACGACGATATGGGTATGGGTTT
ATTCGACTAAAAAGACAACTAATATGAGCAAACTATTATTAGAATGCTTATAGGCAGTTT
CCTATAGTATTTATAAAAAGAAAAATAAAAAAAAATAAAAATATAAAAAAAAAA------
----
Length of 5' end seq. 474
3' end seq. ID VSD248Z
3' end seq.
>VSD248Z.Seq
----------CAATCCTTTATATTCGTCGAAATCTTTAGGCATCATCAAAATGAAATACT
TAGCTGCTTACCTCTTAGCTTCCTTATCAGGCAATGCCAACGCTGCCTCAGTCACCAAGA
TTTTACAATCTGTTGGTGTTGAAGTTGATGCTGCTCGTGTCGAATCTGTCTGCAAAGAAT
TAGACGGTAAAGACGTCCAAGCCTTAATTGCCGCCGGTAAATCTAAAGTTGGTTCAGTTG
CCGCTGCCGCCGCCCCAGCTGCTGCCACCTCTGCTGCCCCAGCTGCTGCTGCCGCTGCCC
CAGCCAAAAAAGTTGTTGAAGAGAAAAAAGAAGAATCAGACGACGATATGGGTATGGGTT
TATTCGACTAAAAAGACAACTAATATGAGCAAACTATTATTAGAATGCTTATAGGCAGTT
TCCTATAGTATTTATAAAAAGAAAAATAAAAAAA
Length of 3' end seq. 444
Connected seq. ID VSD248P
Connected seq.
>VSD248P.Seq
CGCGTCCGCAATCCTTTATATTCGTGCGAAATCTTTAGGCATCATCAAAATGAAATACTT
AGCTGCTTACCTCTTAGCTTCCTTATCAGGCAATGCCAACGCTGCCTCAGTCACCAAGAT
TTTACAATCTGTTGGTGTTGAAGTTGATGCTGCTCGTGTCGAATCTGTCTGCAAAGAATT
AGACGGTAAAGACGTCCAAGCCTTAATTGCCGCCGGTAAATCTAAAGTTGGTTCAGTTGC
CGCTGCCGCCGCCCCAGCTGCTGCCACCTCTGCTGCCCCAGCTGCTGCTGCCGCTGCCCC
AGCCAAAAAAGTTGTTGAAGAGAAAAAAGAAGAATCAGACGACGATATGGGTATGGGTTT
ATTCGACTAAAAAGACAACTAATATGAGCAAACTATTATTAGAATGCTTATAGGCAGTTT
CCTATAGTATTTATAAAAAGAAAAATAAAAAAAAATAAAAATATAAAAAAAAAA------
----CAATCCTTTATATTCGTCGAAATCTTTAGGCATCATCAAAATGAAATACTTAGCTG
CTTACCTCTTAGCTTCCTTATCAGGCAATGCCAACGCTGCCTCAGTCACCAAGATTTTAC
AATCTGTTGGTGTTGAAGTTGATGCTGCTCGTGTCGAATCTGTCTGCAAAGAATTAGACG
GTAAAGACGTCCAAGCCTTAATTGCCGCCGGTAAATCTAAAGTTGGTTCAGTTGCCGCTG
CCGCCGCCCCAGCTGCTGCCACCTCTGCTGCCCCAGCTGCTGCTGCCGCTGCCCCAGCCA
AAAAAGTTGTTGAAGAGAAAAAAGAAGAATCAGACGACGATATGGGTATGGGTTTATTCG
ACTAAAAAGACAACTAATATGAGCAAACTATTATTAGAATGCTTATAGGCAGTTTCCTAT
AGTATTTATAAAAAGAAAAATAAAAAAA
Length of connected seq. 918
Full length Seq ID -
Full length Seq. -
Length of full length seq. -