NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
VSD527
Library VS
(Link to library)
Clone ID VSD527
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06562-1
Original site URL
Representative seq. ID VSD527Z
(Link to Original site)
Representative DNA sequence 
>VSD527 (VSD527Q) /CSM/VS/VSD5-B/VSD527Q.Seq.d/
XXXXXXXXXXAAGTGACTTTCAAACAAAGTTTAACTTCACACAATACAGATTTAAAAATG
GAAATTCATGAAATATTTTTCAAATAAAAAAAATAATTTTTTAAACTTACAAATTATAAT
AATATAGTAATAATACCAATAAATTCAACATCAATATCAATATCAACATCAACATCATCA
TTTTTAATTTAGATATATTTGGACATAGTCACATTTATATTTTAAGAACAATTTTTTTCA
ACAATTATTAGAATGTAGAAATATACAAAAAAAGAAAAGAAAGCACACACACNCCCATAC
ACACACCCAGCACAAATATATATA
sequence update 2001. 3.22
Translated Amino Acid sequence 
---sdfqtkfnftqyrfkngns*nifqikkiif*tykl**YSNNTNKFNININININIII
FNLDIFGHSHIYILRTIFFNNY*nveiykkrkesthtpihtpstniy
Translated Amino Acid sequence (All Frames) 
Frame A:
---sdfqtkfnftqyrfkngns*nifqikkiif*tykl**YSNNTNKFNININININIII
FNLDIFGHSHIYILRTIFFNNY*nveiykkrkesthtpihtpstniy


Frame B:
---vtfkqsltshntdlkmeiheiffk*kk*ffkltnynniviipinstsisiststssf
li*iyldivtfif*eqffstiirm*kytkkekkahtxpythpaqiyi


Frame C:
---*lsnkv*lhtiqi*kwkfmkyfsnkknnflnlqiiii***yq*iqhqyqyqhqhhhf
*fryiwt*shlyfknnffqqllecrniqkkkrkhthxhthtqhkyi
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSD527 (VSD527Q) /CSM/VS/VSD5-B/VSD527Q.Seq.d/                        486   e-136
CHP538 (CHP538Q) /CSM/CH/CHP5-B/CHP538Q.Seq.d/                         56   3e-07
AFB233 (AFB233Q) /CSM/AF/AFB2-B/AFB233Q.Seq.d/                         52   5e-06
VHE712 (VHE712Q) /CSM/VH/VHE7-A/VHE712Q.Seq.d/                         50   2e-05
VHB660 (VHB660Q) /CSM/VH/VHB6-C/VHB660Q.Seq.d/                         50   2e-05
CFC523 (CFC523Q) /CSM/CF/CFC5-A/CFC523Q.Seq.d/                         50   2e-05
AHM408 (AHM408Q) /CSM/AH/AHM4-A/AHM408Q.Seq.d/                         50   2e-05
AHH160 (AHH160Q) /CSM/AH/AHH1-C/AHH160Q.Seq.d/                         50   2e-05
AHG228 (AHG228Q) /CSM/AH/AHG2-B/AHG228Q.Seq.d/                         50   2e-05
AFI569 (AFI569Q) /CSM/AF/AFI5-C/AFI569Q.Seq.d/                         50   2e-05
own update 2003. 1. 9
Homology vs DNA 

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

AC116957|AC116957.2 Dictyostelium discoideum chromosome 2 map 1685067-2090751 strain AX4, complete sequence.   274  e-120  10
AL473903|AL473903.1 T. brucei sheared genomic DNA clone 173e12, forward sequence.    60  2e-05  1
AQ653406|AQ653406.1 Sheared DNA-21G10.TF Sheared DNA Trypanosoma brucei genomic clone Sheared DNA-21G10, genomic survey sequence.    60  2e-05  1
AQ947462|AQ947462.1 Sheared DNA-39L5.TR Sheared DNA Trypanosoma brucei genomic clone Sheared DNA-39L5, genomic survey sequence.    60  2e-05  1
AC116305|AC116305.2 Dictyostelium discoideum chromosome 2 map 1005175-1418323 strain AX4, complete sequence.    56  3e-04  11
AC137035|AC137035.1 Rattus norvegicus clone CH230-unknown, WORKING DRAFT SEQUENCE, 1 ordered piece.    40  9e-04  8
AC019292|AC019292.10 Homo sapiens, clone RP11-23J14, complete sequence.    48  0.001  3
AC115682|AC115682.2 Dictyostelium discoideum chromosome 2 map 4101105-4158643 strain AX4, complete sequence.    34  0.002  6
AC121273|AC121273.3 Mus musculus clone RP24-189C11, WORKING DRAFT SEQUENCE, 18 unordered pieces.    50  0.002  3
AL844509|AL844509.1 Plasmodium falciparum chromosome 13.          44  0.002  7
dna update 2003. 8.21
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: 3268448
Number of Hits to DB: 335,394,706
protein update 2009. 7.29
PSORT 

 psg: 0.85  gvh: 0.33  alm: 0.38  top: 0.47  tms: 0.00  mit: 0.31  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 

	 64.0 %: cytoplasmic
	 20.0 %: nuclear
	 12.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for VSD527 is cyt
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID VSD527Z
3' end seq. 
>VSD527Z.Seq
----------AAGTGACTTTCAAACAAAGTTTAACTTCACACAATACAGATTTAAAAATG
GAAATTCATGAAATATTTTTCAAATAAAAAAAATAATTTTTTAAACTTACAAATTATAAT
AATATAGTAATAATACCAATAAATTCAACATCAATATCAATATCAACATCAACATCATCA
TTTTTAATTTAGATATATTTGGACATAGTCACATTTATATTTTAAGAACAATTTTTTTCA
ACAATTATTAGAATGTAGAAATATACAAAAAAAGAAAAGAAAGCACACACACNCCCATAC
ACACACCCAGCACAAATATATATA
Length of 3' end seq. 314
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -