VSB406
Library VS
(Link to library)
Clone ID VSB406
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16231-1
Original site URL
Representative seq. ID VSB406Z
(Link to Original site)
Representative DNA sequence
>VSB406 (VSB406Q) /CSM/VS/VSB4-A/VSB406Q.Seq.d/
XXXXXXXXXXAACAAGACTCAATTACTTGAACACCTCAAGGAACTCAGAACTGAGCTCTC
AAGTTTAAGAGTTGCCCAAGTTAAATCACCANACCCAAGCAAATTAGCCAAAATCGGTAC
CGTCCGTAAAGCTATTGCCCGTGTTTTAACTGTTTTCAACCAAACTCAAAAGAACCATCT
CCGTNCTGTCTATTCTAAAAAATCATCAAGCAAGATCCCAACTGATCTCCGTTACAAAAA
GACTAGAGCCATCAGAAGACGTCTCACCAACAAACAATCTAAAGTTGTCACCTTAAGAGT
TTCCAAAACTGCCACCAACTTCCCACAAAGAGTTTTCGCTGTTAAAGCCTAAATTTGCAT
TTAGATGATTTTAAAAAATAAAATATATT
sequence update 2000. 4. 4
Translated Amino Acid sequence
---KTQLLEHLKELRTELSSLRVAQVKSPXPSKLAKIGTVRKAIARVLTVFNQTQKNHLR
XVYSKKSSSKIPTDLRYKKTRAIRRRLTNKQSKVVTLRVSKTATNFPQRVFAVKA*ici*
milknkiy


Translated Amino Acid sequence (All Frames)
Frame A:
---trlnylntsrnselssqv*elpklnhxtqan*pksvpsvkllpvf*lfstklkrtis
vlsilknhqarsqlisvtkrlepsedvsptnnlklsp*efpklpptshkefsllkpkfaf
r*f*kikyi


Frame B:
---qdsit*tpqgtqn*alkfkscps*itxpkqisqnryrp*sycpcfncfqpnskepsp
xclf*kiikqdpn*splqkd*shqktshqqti*schlksfqnchqlptksfrc*slnlhl
ddfkk*ni


Frame C:
---KTQLLEHLKELRTELSSLRVAQVKSPXPSKLAKIGTVRKAIARVLTVFNQTQKNHLR
XVYSKKSSSKIPTDLRYKKTRAIRRRLTNKQSKVVTLRVSKTATNFPQRVFAVKA*ici*
milknkiy


Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VSJ543 (VSJ543Q) /CSM/VS/VSJ5-B/VSJ543Q.Seq.d/ 739 0.0
VSJ336 (VSJ336Q) /CSM/VS/VSJ3-B/VSJ336Q.Seq.d/ 739 0.0
VSI788 (VSI788Q) /CSM/VS/VSI7-D/VSI788Q.Seq.d/ 739 0.0
VSI395 (VSI395Q) /CSM/VS/VSI3-D/VSI395Q.Seq.d/ 739 0.0
VSH858 (VSH858Q) /CSM/VS/VSH8-C/VSH858Q.Seq.d/ 739 0.0
VSG811 (VSG811Q) /CSM/VS/VSG8-A/VSG811Q.Seq.d/ 739 0.0
VSG139 (VSG139Q) /CSM/VS/VSG1-B/VSG139Q.Seq.d/ 739 0.0
VSE856 (VSE856Q) /CSM/VS/VSE8-C/VSE856Q.Seq.d/ 739 0.0
VSD708 (VSD708Q) /CSM/VS/VSD7-A/VSD708Q.Seq.d/ 739 0.0
VSD292 (VSD292Q) /CSM/VS/VSD2-D/VSD292Q.Seq.d/ 739 0.0

own update 2004. 5.28
Homology vs DNA

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

CB264903|CB264903.1 24-E015021-035-004-O05-T7R MPIZ-ADIS-035 Arabidopsis thaliana cDNA clone MPIZp2000O054Q 5-PRIME, mRNA sequence. 46 0.32 1
AI996565|AI996565.1 701667462 A. thaliana, Columbia Col-0, root-1 Arabidopsis thaliana cDNA clone 701667462, mRNA sequence. 46 0.32 1
AL084068|AL084068.1 Arabidopsis thaliana genome survey sequence T7 end of BAC F8C2 of IGF library from strain Columbia of Arabidopsis thaliana. 46 0.32 1
BT006384|BT006384.1 Arabidopsis thaliana At3g55170 gene, complete cds. 46 0.32 1
BE038964|BE038964.1 AB07H02 AB Arabidopsis thaliana cDNA 5' similar to ribosomal protein l35, mRNA sequence. 46 0.32 1
AU226410|AU226410.1 Arabidopsis thaliana cDNA clone:RAFL14-31-M09, 3'-end. 46 0.32 1
BZ223087|BZ223087.1 CH230-496G16.TVB CHORI-230 Segment 2 Rattus norvegicus genomic clone CH230-496G16, DNA sequence. 46 0.32 1
Z47610|Z47610.1 A. thaliana transcribed sequence; clone TAI212; 5' end; Similar to mRNA for ribosomal protein L35 ; Oriza sativa. 46 0.32 1
AC140378|AC140378.1 Mus musculus chromosome UNK clone RP24-84M18, WORKING DRAFT SEQUENCE, 11 unordered pieces. 36 0.36 4
X04465|X04465.1 Marchantia polymorpha chloroplast genome DNA. 32 0.98 5
dna update 2003. 8.20
Homology vs Protein

Score E
Sequences producing significant alignments: (bits) Value

AE017341_741(AE017341|pid:none) Cryptococcus neoformans var. neo... 115 6e-25
EU958029_1(EU958029|pid:none) Zea mays clone 1664319 60S ribosom... 105 5e-22
AF548325_1(AF548325|pid:none) Branchiostoma belcheri ribosomal p... 104 1e-21
AK059262_1(AK059262|pid:none) Oryza sativa Japonica Group cDNA c... 104 1e-21
EU959220_1(EU959220|pid:none) Zea mays clone 212376 60S ribosoma... 102 4e-21
(P17078) RecName: Full=60S ribosomal protein L35; &(Q6ZWV7) Rec... 102 6e-21
(Q9M3D2) RecName: Full=60S ribosomal protein L35-3; &AK227739_1... 101 7e-21
BT053501_1(BT053501|pid:none) Medicago truncatula clone MTYFP_FQ... 101 9e-21
(Q9LZ41) RecName: Full=60S ribosomal protein L35-4; &AK226248_1... 101 9e-21
AC149264_3(AC149264|pid:none) Medicago truncatula clone mth2-78f... 100 1e-20
protein update 2009. 7.28
PSORT

psg: 0.65 gvh: 0.45 alm: 0.46 top: 0.53 tms: 0.00 mit: 0.22 mip: 0.00
nuc: 0.19 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
44.0 %: cytoplasmic
4.0 %: mitochondrial

>> prediction for VSB406 is nuc

5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID VSB406Z
3' end seq.
>VSB406Z.Seq
----------AACAAGACTCAATTACTTGAACACCTCAAGGAACTCAGAACTGAGCTCTC
AAGTTTAAGAGTTGCCCAAGTTAAATCACCANACCCAAGCAAATTAGCCAAAATCGGTAC
CGTCCGTAAAGCTATTGCCCGTGTTTTAACTGTTTTCAACCAAACTCAAAAGAACCATCT
CCGTNCTGTCTATTCTAAAAAATCATCAAGCAAGATCCCAACTGATCTCCGTTACAAAAA
GACTAGAGCCATCAGAAGACGTCTCACCAACAAACAATCTAAAGTTGTCACCTTAAGAGT
TTCCAAAACTGCCACCAACTTCCCACAAAGAGTTTTCGCTGTTAAAGCCTAAATTTGCAT
TTAGATGATTTTAAAAAATAAAATATATT
Length of 3' end seq. 379
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -