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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
VSH271
Library VS
(Link to library)
Clone ID VSH271
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U12231-1
Original site URL
Representative seq. ID VSH271P
(Link to Original site)
Representative DNA sequence 
>VSH271 (VSH271Q) /CSM/VS/VSH2-C/VSH271Q.Seq.d/
ATTATTTTTGTATAAAATAAAAAAAAAAGTAANGATAATAAAAAAAAAAXXXXXXXXXXA
ACAACAACCACATCAACCACAACAACAATATATATCACCAGAGAAACAAGCATCAATTGA
AACACCAAATAAAATTAAATTTTCAAATAATGAAGACACATTCAATAATACAAGTTACAC
TCAACCAGAAGGTGATTGGGATAACGATGATGATATAACATTTGATGATGATAATATAAT
TGATAATTTAGATCAACAACAACAACAACAACAACAACAACAACAACAACAATTAGAAGA
AAAAGAAGAAAAAGAAGAAAAAGAAGTAGTAAGAGAAGTTTTTATACCAACACCTAAAAA
ATCAACAATCATTTG
sequence update 2001. 3.22
Translated Amino Acid sequence 
LFLYKIKKKVXIIKKK---

---QQPHQPQQQYISPEKQASIETPNKIKFSNNEDTFNNTSYTQPEGDWDNDDDITFDDD
NIIDNLDQQQQQQQQQQQQQLEEKEEKEEKEVVREVFIPTPKKSTII
Translated Amino Acid sequence (All Frames) 
Frame A:
iifv*nkkksxdnkkk---

---nnnhinhnnniyhqrnkhqlkhqiklnfqimkthsiiqvtlnqkvigitmmi*hlmm
ii*lii*innnnnnnnnnnnn*kkkkkkkkkk**ekflyqhlknqqsf

Frame B:
LFLYKIKKKVXIIKKK---

---ttttsttttiyitretsin*ntk*n*ifk**rhiq*yklhstrr*lg*r**yni***
*yn**frsttttttttttttirrkrrkrrkrsskrsfytnt*kinnhl

Frame C:
yfcik*kkk*x**kk---

---QQPHQPQQQYISPEKQASIETPNKIKFSNNEDTFNNTSYTQPEGDWDNDDDITFDDD
NIIDNLDQQQQQQQQQQQQQLEEKEEKEEKEVVREVFIPTPKKSTII
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSH271 (VSH271Q) /CSM/VS/VSH2-C/VSH271Q.Seq.d/                        385   e-106
SSF746 (SSF746Q) /CSM/SS/SSF7-B/SSF746Q.Seq.d/                        385   e-106
VSJ377 (VSJ377Q) /CSM/VS/VSJ3-D/VSJ377Q.Seq.d/                         98   1e-19
VHF178 (VHF178Q) /CSM/VH/VHF1-D/VHF178Q.Seq.d/                         50   2e-05
VFO558 (VFO558Q) /CSM/VF/VFO5-C/VFO558Q.Seq.d/                         50   2e-05
SSL673 (SSL673Q) /CSM/SS/SSL6-D/SSL673Q.Seq.d/                         50   2e-05
SLH113 (SLH113Q) /CSM/SL/SLH1-A/SLH113Q.Seq.d/                         50   2e-05
SHB337 (SHB337Q) /CSM/SH/SHB3-B/SHB337Q.Seq.d/                         50   2e-05
CHS237 (CHS237Q) /CSM/CH/CHS2-B/CHS237Q.Seq.d/                         50   2e-05
CHJ612 (CHJ612Q) /CSM/CH/CHJ6-A/CHJ612Q.Seq.d/                         50   2e-05
own update 2004.12.25
Homology vs DNA 

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

(AU267174) Dictyostelium discoideum vegetative cDNA clone:VS...   264   3e-81  2
(C93076) Dictyostelium discoideum slug cDNA, clone SSF746.        264   5e-81  2
(AU269830) Dictyostelium discoideum vegetative cDNA clone:VS...    74   4e-13  2
(AU269831) Dictyostelium discoideum vegetative cDNA clone:VS...    70   5e-12  2
(EY333788) CAWY5927.fwd CAWY Helobdella robusta Subtracted E...    58   2e-04  1
(EY330613) CAWY3602.fwd CAWY Helobdella robusta Subtracted E...    58   2e-04  1
(EY328347) CAWY1511.fwd CAWY Helobdella robusta Subtracted E...    58   2e-04  1
(EY325064) CAWY10690.fwd CAWY Helobdella robusta Subtracted ...    58   2e-04  1
(EY314572) CAWX25582.rev CAWX Helobdella robusta Primary Ear...    58   2e-04  1
(AC114163) Rattus norvegicus clone CH230-165B9, WORKING DRAF...    54   0.004  1
dna update 2009. 6. 6
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: 238,582,587
protein update 2009. 3.23
PSORT 

 psg: 0.53  gvh: 0.15  alm: 0.56  top: 0.53  tms: 0.00  mit: 0.30  mip: 0.00
 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 

	 52.0 %: nuclear
	 20.0 %: mitochondrial
	 20.0 %: cytoplasmic
	  8.0 %: cytoskeletal

>> prediction for VSH271 is nuc
5' end seq. ID VSH271F
5' end seq. 
>VSH271F.Seq
ATTATTTTTGTATAAAATAAAAAAAAAAGTAANGATAATAAAAAAAAAA----------
Length of 5' end seq. 49
3' end seq. ID VSH271Z
3' end seq. 
>VSH271Z.Seq
----------AACAACAACCACATCAACCACAACAACAATATATATCACCAGAGAAACAA
GCATCAATTGAAACACCAAATAAAATTAAATTTTCAAATAATGAAGACACATTCAATAAT
ACAAGTTACACTCAACCAGAAGGTGATTGGGATAACGATGATGATATAACATTTGATGAT
GATAATATAATTGATAATTTAGATCAACAACAACAACAACAACAACAACAACAACAACAA
CAATTAGAAGAAAAAGAAGAAAAAGAAGAAAAAGAAGTAGTAAGAGAAGTTTTTATACCA
ACACCTAAAAAATCAACAATCATTTG
Length of 3' end seq. 316
Connected seq. ID VSH271P
Connected seq. 
>VSH271P.Seq
ATTATTTTTGTATAAAATAAAAAAAAAAGTAANGATAATAAAAAAAAAA----------A
ACAACAACCACATCAACCACAACAACAATATATATCACCAGAGAAACAAGCATCAATTGA
AACACCAAATAAAATTAAATTTTCAAATAATGAAGACACATTCAATAATACAAGTTACAC
TCAACCAGAAGGTGATTGGGATAACGATGATGATATAACATTTGATGATGATAATATAAT
TGATAATTTAGATCAACAACAACAACAACAACAACAACAACAACAACAACAATTAGAAGA
AAAAGAAGAAAAAGAAGAAAAAGAAGTAGTAAGAGAAGTTTTTATACCAACACCTAAAAA
ATCAACAATCATTTG
Length of connected seq. 365
Full length Seq ID -
Full length Seq. -
Length of full length seq. -