VSJ377
Library VS
(Link to library)
Clone ID VSJ377
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U14907-1
Original site URL
Representative seq. ID VSJ377P
(Link to Original site)
Representative DNA sequence
>VSJ377 (VSJ377Q) /CSM/VS/VSJ3-D/VSJ377Q.Seq.d/
CTAGNAAACAATGGTGTACCAATCATTGCTAAATGCTTTGATAAAGCTGTTACCATTACC
TTCCAACCAATTGATATTCCAACACTTATCATTCAAACTACTCCAATCTCACCATCATTC
GCTGGTAAACAACATAAAGGTGATTTACCTGAACCAAATAAAGATGGTTCAACCTCAACT
TCCTCAACTAATCCACCAGATTTTAATTCAACAACAACAACAACAACAACAACAACAACA
ACAACAATTAGAAGAAAAAGAAGAAAAAGAAGAAAAAGAAGTAGTAAGAGAAGTTTTTAT
ACCAACACCTAAAAAATCAACAATCATTTGGAATGATGATGATGATGGTTTTGGTGAATA
AATAATTAAATTTTGTACAAAAATAAAAATAAATAAAAAGAATATTAATAAAATAAAAAA
AAAAXXXXXXXXXXCTAGAAACAATGGTGTACCAATCATTGCTAAATGCTTTGATAAAGC
TGTTACCATTACCTTCCAACCAATTGATATTCCAACACTTATCATTCAAACTACTCCAAT
CTCACCATCATTCGCTGGTAAACAACATAAAGGTGATTTACCTGAACCAAATAAAGATGG
TTCAACCTCAACTTCCTCAACTAATCCACCAGATTTTAATTCAACAACAACAACAACAAC
AACAACAACAACAACAACAATTAGAAGAAAAAGAAGAAAAAGAAGAAAAAGAAGTAGTAA
GAGAAGTTTTTATACCAACACCTAAAAAATCAACAATCATTGGAATGATGATGATG
sequence update 2001. 3.22
Translated Amino Acid sequence
*xtmvyqsllnalikllplpsnqlifqhlsfkllqshhhslvnnikviylnqikmvqpql
pqlihqiliqqqqqqqqqqqqqleekeekeekevvrevfiptpkkstiiwnddddgfge*
IIKFCTKIKINKKNINKIKKK---

---LETMVYQSLLNALIKLLPLPSNQLIFQHLSFKLLQSHHHSLVNNIKVIYLNQIKMVQ
PQLPQLIHQILIQQQQQQQQQQQQQLEEKEEKEEKEVVREVFIPTPKKSTIIGMMMM


Translated Amino Acid sequence (All Frames)
Frame A:
lxnngvpiiakcfdkavtitfqpidiptliiqttpispsfagkqhkgdlpepnkdgstst
sstnppdfnsttttttttttttirrkrrkrrkrsskrsfytnt*kinnhle****wfw*i
nn*ilyknknk*key**nkkk---

---LETMVYQSLLNALIKLLPLPSNQLIFQHLSFKLLQSHHHSLVNNIKVIYLNQIKMVQ
PQLPQLIHQILIQQQQQQQQQQQQQLEEKEEKEEKEVVREVFIPTPKKSTIIGMMMM

Frame B:
*xtmvyqsllnalikllplpsnqlifqhlsfkllqshhhslvnnikviylnqikmvqpql
pqlihqiliqqqqqqqqqqqqqleekeekeekevvrevfiptpkkstiiwnddddgfge*
IIKFCTKIKINKKNINKIKKK---

---*kqwctnhc*ml**scyhylptn*ysntyhsnysnltiirw*tt*r*ft*tk*rwfn
lnfln*strf*fnnnnnnnnnnnnn*kkkkkkkkkk**ekflyqhlknqqsle***

Frame C:
xkqwctnhc*ml**scyhylptn*ysntyhsnysnltiirw*tt*r*ft*tk*rwfnlnf
ln*strf*fnnnnnnnnnnnnn*kkkkkkkkkk**ekflyqhlknqqsfgmmmmmvlvnk
*lnfvqk*k*ikrilik*kk---

---rnngvpiiakcfdkavtitfqpidiptliiqttpispsfagkqhkgdlpepnkdgst
stsstnppdfnsttttttttttttirrkrrkrrkrsskrsfytnt*kinnhwnddd

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VSJ377 (VSJ377Q) /CSM/VS/VSJ3-D/VSJ377Q.Seq.d/ 410 e-113
VHG526 (VHG526Q) /CSM/VH/VHG5-B/VHG526Q.Seq.d/ 276 5e-73
SSF746 (SSF746Q) /CSM/SS/SSF7-B/SSF746Q.Seq.d/ 192 6e-48
VSH271 (VSH271Q) /CSM/VS/VSH2-C/VSH271Q.Seq.d/ 98 2e-19
VHN373 (VHN373Q) /CSM/VH/VHN3-D/VHN373Q.Seq.d/ 42 0.012
VHE895 (VHE895Q) /CSM/VH/VHE8-D/VHE895Q.Seq.d/ 42 0.012
VHD796 (VHD796Q) /CSM/VH/VHD7-D/VHD796Q.Seq.d/ 42 0.012
VHO436 (VHO436Q) /CSM/VH/VHO4-B/VHO436Q.Seq.d/ 40 0.049
VHN687 (VHN687Q) /CSM/VH/VHN6-D/VHN687Q.Seq.d/ 40 0.049
VHN572 (VHN572Q) /CSM/VH/VHN5-C/VHN572Q.Seq.d/ 40 0.049

own update 2003. 1.10
Homology vs DNA

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

AL486884|AL486884.1 T. brucei sheared genomic DNA clone 267h11, reverse sequence. 38 0.003 2
AL473663|AL473663.1 T. brucei sheared genomic DNA clone 174b06, forward sequence. 38 0.003 2
AL484750|AL484750.1 T. brucei sheared genomic DNA clone 267h11, forward sequence. 38 0.003 2
AL480325|AL480325.1 T. brucei sheared genomic DNA clone 220d08, reverse sequence. 38 0.003 2
AQ648062|AQ648062.1 RPCI93-DpnII-26L3.TV RPCI93-DpnII Trypanosoma brucei genomic clone RPCI93-DpnII-26L3, genomic survey sequence. 38 0.003 2
AL474501|AL474501.1 T. brucei sheared genomic DNA clone 174b06, reverse sequence. 38 0.003 2
AL456014|AL456014.1 T. brucei sheared genomic DNA clone 49f05, reverse sequence. 38 0.003 2
AQ945038|AQ945038.1 Sheared DNA-22M10.TF Sheared DNA Trypanosoma brucei genomic clone Sheared DNA-22M10, genomic survey sequence. 38 0.003 2
AE013265|AE013265.1 Methanosarcina mazei strain Goe1, section 47 of 379 of the complete genome. 38 0.046 2
AC116920|AC116920.2 Dictyostelium discoideum chromosome 2 map 3879572-4071762 strain AX4, complete sequence. 36 0.27 5
dna update 2003. 7.19
Homology vs Protein

***** No hits found ******

Lambda K H
0.318 0.134 0.401

Gapped
Lambda K H
0.267 0.0410 0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3019103
Number of Hits to DB: 819,905,004
protein update 2009. 3.25
PSORT

psg: 0.40 gvh: 0.50 alm: 0.42 top: 0.53 tms: 0.00 mit: 0.34 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

40.0 %: nuclear
28.0 %: cytoplasmic
16.0 %: mitochondrial
8.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: vesicles of secretory system

>> prediction for VSJ377 is nuc

5' end seq. ID VSJ377F
5' end seq.
>VSJ377F.Seq
CTAGNAAACAATGGTGTACCAATCATTGCTAAATGCTTTGATAAAGCTGTTACCATTACC
TTCCAACCAATTGATATTCCAACACTTATCATTCAAACTACTCCAATCTCACCATCATTC
GCTGGTAAACAACATAAAGGTGATTTACCTGAACCAAATAAAGATGGTTCAACCTCAACT
TCCTCAACTAATCCACCAGATTTTAATTCAACAACAACAACAACAACAACAACAACAACA
ACAACAATTAGAAGAAAAAGAAGAAAAAGAAGAAAAAGAAGTAGTAAGAGAAGTTTTTAT
ACCAACACCTAAAAAATCAACAATCATTTGGAATGATGATGATGATGGTTTTGGTGAATA
AATAATTAAATTTTGTACAAAAATAAAAATAAATAAAAAGAATATTAATAAAATAAAAAA
AAAA----------
Length of 5' end seq. 424
3' end seq. ID VSJ377Z
3' end seq.
>VSJ377Z.Seq
----------CTAGAAACAATGGTGTACCAATCATTGCTAAATGCTTTGATAAAGCTGTT
ACCATTACCTTCCAACCAATTGATATTCCAACACTTATCATTCAAACTACTCCAATCTCA
CCATCATTCGCTGGTAAACAACATAAAGGTGATTTACCTGAACCAAATAAAGATGGTTCA
ACCTCAACTTCCTCAACTAATCCACCAGATTTTAATTCAACAACAACAACAACAACAACA
ACAACAACAACAACAATTAGAAGAAAAAGAAGAAAAAGAAGAAAAAGAAGTAGTAAGAGA
AGTTTTTATACCAACACCTAAAAAATCAACAATCATTGGAATGATGATGATG
Length of 3' end seq. 342
Connected seq. ID VSJ377P
Connected seq.
>VSJ377P.Seq
CTAGNAAACAATGGTGTACCAATCATTGCTAAATGCTTTGATAAAGCTGTTACCATTACC
TTCCAACCAATTGATATTCCAACACTTATCATTCAAACTACTCCAATCTCACCATCATTC
GCTGGTAAACAACATAAAGGTGATTTACCTGAACCAAATAAAGATGGTTCAACCTCAACT
TCCTCAACTAATCCACCAGATTTTAATTCAACAACAACAACAACAACAACAACAACAACA
ACAACAATTAGAAGAAAAAGAAGAAAAAGAAGAAAAAGAAGTAGTAAGAGAAGTTTTTAT
ACCAACACCTAAAAAATCAACAATCATTTGGAATGATGATGATGATGGTTTTGGTGAATA
AATAATTAAATTTTGTACAAAAATAAAAATAAATAAAAAGAATATTAATAAAATAAAAAA
AAAA----------CTAGAAACAATGGTGTACCAATCATTGCTAAATGCTTTGATAAAGC
TGTTACCATTACCTTCCAACCAATTGATATTCCAACACTTATCATTCAAACTACTCCAAT
CTCACCATCATTCGCTGGTAAACAACATAAAGGTGATTTACCTGAACCAAATAAAGATGG
TTCAACCTCAACTTCCTCAACTAATCCACCAGATTTTAATTCAACAACAACAACAACAAC
AACAACAACAACAACAACAATTAGAAGAAAAAGAAGAAAAAGAAGAAAAAGAAGTAGTAA
GAGAAGTTTTTATACCAACACCTAAAAAATCAACAATCATTGGAATGATGATGATG
Length of connected seq. 766
Full length Seq ID -
Full length Seq. -
Length of full length seq. -