VHD275
Library VH
(Link to library)
Clone ID VHD275
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16110-1
Original site URL
Representative seq. ID VHD275P
(Link to Original site)
Representative DNA sequence
>VHD275 (VHD275Q) /CSM/VH/VHD2-D/VHD275Q.Seq.d/
AACAACAACAACAACAACAACAACAACAACAACAACAACAACAAACAAAACCAAAATCAC
CATCACCACCTCCACCACAACAACAAGCAGAAGAACCAGTTTCACAACCTACATTAAATG
ATGATGAATATGAAAGACAAGCTCAAATTGCATTACAACAACAACAAGAGAAACAAAGAC
AGATGGAATTGGAGATTCAAAGAGAATATGAAAGATTAGCAGCAGAAGGTCAAGGTGTTG
AAGAAAATATCGATTATGAAGCTGAACAAAGAAAAAGANAAGAAGAATCTAGAAAGAGAT
TGTTGGAAAGACAAAATAAATCANNAGGTGCTGCANAACAAAAAACACCTGANGATGAAG
AAAAXXXXXXXXXXGATGNAGAGTATGAAGGNCAAGCTCANCNAGCNTTGCNACANCAAC
TAGAGTNTACAAAGCCAGATGGNATTAGAGATTCAANNNNAGTATGAACCATTAGCAGCA
GAAGGTCAAGGTGTTGAAGANNATATCGATTATGAAGCTGAATAAAGATAGAGANAAGAA
GNATCNAGAAAGAGATTCCTAGAGAGACATCAATNNANCANNNAACCGTGCAAAACAANG
TCCACCTGAAGATGAAGNAANAGGATAGTNATTAGNTTAGAGCANACNANAAGAAGAGAG
TGTCAACAAAGAGNATTAATGANACAAGCAATGAGTGGTGNCGGTGGTACTCCAAAGAAA
GAGACACCANAATCACAAGAAGAACAATCACAACCACTTNAANAACAATCAAAACCAAAA
TCTCCANCACCACANCNACNACAACAACAAATAGAGGAGCCANCNTCACAACCATACATC
AAATGATGATGAATATGAAAGACAGGTTCAAATTGCATTACAANAACAACAAGAAAAACA
AAGACAGATGGAATTAGAGATTCAAAGAGAATACGAAAGATTAGCAGCAGAAGGTCAAGG
TGTTGAAGAAAATATCGATTATGAAGCTGAAGAAAAGAAAAGACAAGAAGAATCTAGAAA
GAGAATGTGGAAAGACAAAATAAAGCAAAAGGTGCAGCAAAACAAAAAACAC
sequence update 2002.10.25
Translated Amino Acid sequence
QQQQQQQQQQQQQQTKPKSPSPPPPQQQAEEPVSQPTLNDDEYERQAQIALQQQQEKQRQ
MELEIQREYERLAAEGQGVEENIDYEAEQRKRXEESRKRLLERQNKSXGAAXQKTPXDEE
---

---DXEYEGQAXXALXXQLEXTKPDGIRDSXXV*tissrrsrc*rxyrl*s*ikiexrxi
xkeipretsxxxxtvqnxvhlkmkxxdsx*xraxxkkrvstkxinxtsnewxrwyskerd
txitrrtitttxxtiktkisxttxttttnrgaxxttihqmmmnmkdrfklhyxnnkknkd
rwn*rfkentkd*qqkvkvlkkisimklkkrkdkknlerecgktk*skrcsktkn


Translated Amino Acid sequence (All Frames)
Frame A:
nnnnnnnnnnnnnnkqnqnhhhhlhhnnkqknqfhnlh*mmmnmkdklklhynnnkrnkd
rwnwrfkenmkd*qqkvkvlkkisimklnkekxkknlerdcwkdkinxxvlxnkkhlxmk
k---

---DXEYEGQAXXALXXQLEXTKPDGIRDSXXV*tissrrsrc*rxyrl*s*ikiexrxi
xkeipretsxxxxtvqnxvhlkmkxxdsx*xraxxkkrvstkxinxtsnewxrwyskerd
txitrrtitttxxtiktkisxttxttttnrgaxxttihqmmmnmkdrfklhyxnnkknkd
rwn*rfkentkd*qqkvkvlkkisimklkkrkdkknlerecgktk*skrcsktkn

Frame B:
ttttttttttttttnktkitittsttttsrrtsfttyik***i*ktssncittttretkt
dgigdskri*kissrrsrc*rkyrl*s*tkkkxrri*keivgktk*ixrccxtknt*x*r
k---

---mxsmkxklxxxcxxn*sxqsqmxleiqxxyeplaaegqgvexxidyeae*r*rxexs
rkrflerhqxxxxpcktxst*r*xxrivixlextxrrecqqrxlmxqamsgxggtpkket
pxsqeeqsqplxxqskpkspxpxxxqqqieepxsqpyik***i*ktgsncitxttrktkt
dgirdskrirkissrrsrc*rkyrl*s*rkektrri*kenverqnkakgaakqkt

Frame C:
QQQQQQQQQQQQQQTKPKSPSPPPPQQQAEEPVSQPTLNDDEYERQAQIALQQQQEKQRQ
MELEIQREYERLAAEGQGVEENIDYEAEQRKRXEESRKRLLERQNKSXGAAXQKTPXDEE
---

---xrv*rxssxsxatxtrvykarwx*rfxxsmnh*qqkvkvlkxisimklnkdrxkkxx
erds*rdinxxxnrakqxppedexxg*xlx*sxxxeesvnkex**xkq*vvxvvlqrkrh
xnhkknnhnhxxnnqnqnlxhhxxxnnk*rsxxhnhtsnddeyerqvqialqxqqekqrq
meleiqreyerlaaegqgveenidyeaeekkrqeesrkrmwkdkikqkvqqnkkh

Homology vs CSM-cDNA

Score E
Sequences producing significant alignments: (bits) Value

VHD275 (VHD275Q) /CSM/VH/VHD2-D/VHD275Q.Seq.d/ 1378 0.0
VSA326 (VSA326Q) /CSM/VS/VSA3-B/VSA326Q.Seq.d/ 490 e-137
AFF194 (AFF194Q) /CSM/AF/AFF1-D/AFF194Q.Seq.d/ 373 e-102
VHJ276 (VHJ276Q) /CSM/VH/VHJ2-D/VHJ276Q.Seq.d/ 281 1e-74
VSC647 (VSC647Q) /CSM/VS/VSC6-B/VSC647Q.Seq.d/ 228 1e-58
CHR602 (CHR602Q) /CSM/CH/CHR6-A/CHR602Q.Seq.d/ 42 0.017
VHK386 (VHK386Q) /CSM/VH/VHK3-D/VHK386Q.Seq.d/ 40 0.068
VHJ619 (VHJ619Q) /CSM/VH/VHJ6-A/VHJ619Q.Seq.d/ 40 0.068
SLI643 (SLI643Q) /CSM/SL/SLI6-B/SLI643Q.Seq.d/ 40 0.068
AHB634 (AHB634Q) /CSM/AH/AHB6-B/AHB634Q.Seq.d/ 40 0.068

own update 2004.12.24
Homology vs DNA

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

AI136150|AI136150.1 UI-R-C2p-ny-f-11-0-UI.s1 UI-R-C2p Rattus norvegicus cDNA cloneUI-R-C2p-ny-f-11-0-UI 3', mRNA sequence. 50 0.13 1
CR847850|CR847850.22 Zebrafish DNA sequence from clone DKEY-90D8 in linkage group 3. 40 0.80 4
AC164389|AC164389.2 Bos taurus clone CH240-139E11, *** SEQUENCING IN PROGRESS ***, 15 unordered pieces. 42 0.89 4
AC093265|AC093265.2 Homo sapiens chromosome 5 clone RP11-271I7, WORKING DRAFT SEQUENCE, 11 unordered pieces. 46 1.1 3
AC179035|AC179035.1 Strongylocentrotus purpuratus clone R3-4004K11, WORKING DRAFT SEQUENCE, 19 unordered pieces. 40 1.4 3
AC093532|AC093532.2 Homo sapiens chromosome 5 clone RP11-407N4, complete sequence. 46 1.4 5
BP534884|BP534884.1 Nicotiana tabacum cDNA, clone: BY34092, primer: M13 reverse, sequence 1. 38 2.0 2
DN808072|DN808072.1 76942321 Sea Urchin primary mesenchyme cell cDNA library Strongylocentrotus purpuratus cDNA clone PMCSPR2-70J16 5', mRNA sequence. 46 2.1 1
DN785715|DN785715.1 90159445 Sea Urchin primary mesenchyme cell cDNA library Strongylocentrotus purpuratus cDNA clone PMCSPR2-53B21 5', mRNA sequence. 46 2.1 1
EC735509|EC735509.1 NUE00001763 Capsaspora owczarzaki Amplicon express Capsaspora owczarzaki cDNA, mRNA sequence. 46 2.1 1
dna update 2007. 5.11
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: 3204285
Number of Hits to DB: 631,062,650
protein update 2009. 6.29
PSORT

psg: 0.47 gvh: 0.12 alm: 0.64 top: 0.53 tms: 0.00 mit: 0.27 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 %: nuclear
24.0 %: cytoplasmic
8.0 %: mitochondrial
4.0 %: cytoskeletal
4.0 %: vacuolar
4.0 %: plasma membrane
4.0 %: vesicles of secretory system

>> prediction for VHD275 is nuc

5' end seq. ID VHD275F
5' end seq.
>VHD275F.Seq
AACAACAACAACAACAACAACAACAACAACAACAACAACAACAAACAAAACCAAAATCAC
CATCACCACCTCCACCACAACAACAAGCAGAAGAACCAGTTTCACAACCTACATTAAATG
ATGATGAATATGAAAGACAAGCTCAAATTGCATTACAACAACAACAAGAGAAACAAAGAC
AGATGGAATTGGAGATTCAAAGAGAATATGAAAGATTAGCAGCAGAAGGTCAAGGTGTTG
AAGAAAATATCGATTATGAAGCTGAACAAAGAAAAAGANAAGAAGAATCTAGAAAGAGAT
TGTTGGAAAGACAAAATAAATCANNAGGTGCTGCANAACAAAAAACACCTGANGATGAAG
AAAANNNNNNNNNN
Length of 5' end seq. 374
3' end seq. ID VHD275Z
3' end seq.
>VHD275Z.Seq
NNNNNNNNNNGATGNAGAGTATGAAGGNCAAGCTCANCNAGCNTTGCNACANCAACTAGA
GTNTACAAAGCCAGATGGNATTAGAGATTCAANNNNAGTATGAACCATTAGCAGCAGAAG
GTCAAGGTGTTGAAGANNATATCGATTATGAAGCTGAATAAAGATAGAGANAAGAAGNAT
CNAGAAAGAGATTCCTAGAGAGACATCAATNNANCANNNAACCGTGCAAAACAANGTCCA
CCTGAAGATGAAGNAANAGGATAGTNATTAGNTTAGAGCANACNANAAGAAGAGAGTGTC
AACAAAGAGNATTAATGANACAAGCAATGAGTGGTGNCGGTGGTACTCCAAAGAAAGAGA
CACCANAATCACAAGAAGAACAATCACAACCACTTNAANAACAATCAAAACCAAAATCTC
CANCACCACANCNACNACAACAACAAATAGAGGAGCCANCNTCACAACCATACATCAAAT
GATGATGAATATGAAAGACAGGTTCAAATTGCATTACAANAACAACAAGAAAAACAAAGA
CAGATGGAATTAGAGATTCAAAGAGAATACGAAAGATTAGCAGCAGAAGGTCAAGGTGTT
GAAGAAAATATCGATTATGAAGCTGAAGAAAAGAAAAGACAAGAAGAATCTAGAAAGAGA
ATGTGGAAAGACAAAATAAAGCAAAAGGTGCAGCAAAACAAAAAACAC
Length of 3' end seq. 708
Connected seq. ID VHD275P
Connected seq.
>VHD275P.Seq
AACAACAACAACAACAACAACAACAACAACAACAACAACAACAAACAAAACCAAAATCAC
CATCACCACCTCCACCACAACAACAAGCAGAAGAACCAGTTTCACAACCTACATTAAATG
ATGATGAATATGAAAGACAAGCTCAAATTGCATTACAACAACAACAAGAGAAACAAAGAC
AGATGGAATTGGAGATTCAAAGAGAATATGAAAGATTAGCAGCAGAAGGTCAAGGTGTTG
AAGAAAATATCGATTATGAAGCTGAACAAAGAAAAAGANAAGAAGAATCTAGAAAGAGAT
TGTTGGAAAGACAAAATAAATCANNAGGTGCTGCANAACAAAAAACACCTGANGATGAAG
AAAA----------GATGNAGAGTATGAAGGNCAAGCTCANCNAGCNTTGCNACANCAAC
TAGAGTNTACAAAGCCAGATGGNATTAGAGATTCAANNNNAGTATGAACCATTAGCAGCA
GAAGGTCAAGGTGTTGAAGANNATATCGATTATGAAGCTGAATAAAGATAGAGANAAGAA
GNATCNAGAAAGAGATTCCTAGAGAGACATCAATNNANCANNNAACCGTGCAAAACAANG
TCCACCTGAAGATGAAGNAANAGGATAGTNATTAGNTTAGAGCANACNANAAGAAGAGAG
TGTCAACAAAGAGNATTAATGANACAAGCAATGAGTGGTGNCGGTGGTACTCCAAAGAAA
GAGACACCANAATCACAAGAAGAACAATCACAACCACTTNAANAACAATCAAAACCAAAA
TCTCCANCACCACANCNACNACAACAACAAATAGAGGAGCCANCNTCACAACCATACATC
AAATGATGATGAATATGAAAGACAGGTTCAAATTGCATTACAANAACAACAAGAAAAACA
AAGACAGATGGAATTAGAGATTCAAAGAGAATACGAAAGATTAGCAGCAGAAGGTCAAGG
TGTTGAAGAAAATATCGATTATGAAGCTGAAGAAAAGAAAAGACAAGAAGAATCTAGAAA
GAGAATGTGGAAAGACAAAATAAAGCAAAAGGTGCAGCAAAACAAAAAACAC
Length of connected seq. 1062
Full length Seq ID -
Full length Seq. -
Length of full length seq. -