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
SSH234
Library SS
(Link to library)
Clone ID SSH234
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16581-1
Original site URL
Representative seq. ID SSH234E
(Link to Original site)
Representative DNA sequence 
>SSH234 (SSH234Q) /CSM/SS/SSH2-B/SSH234Q.Seq.d/
CAATTAATTAAAAAAAAAAAAAAAAAATTNAAAAAAAATTTAATAAGTTTTAAAATGGTA
TAGTTTTAATAAAAAAAAAAAAAAANCCACTATCATTAGTAGTAAAAAAAAAATAAAAAN
TAAAAAAAAAAAAANTAAAAAAAAATAATAATAAGCTATACCATGGGACTTAGAGAAAAT
AAAAAAGTTTAAAAAAAAAATAAAAAATAATAAAAAATAAAAAAAAAATAAAAAAAAAAA
CTTTTAAAACTCTCCTTCTACTTTTTGGTGCTTCTGTTAAGCTAATGCTAAGGTGTCTCT
CTCCCCCTTTGCTTTGCATTACTCTCCTCAAGCTCAGATAATCTCGAGCTCCACTAACGA
TGCTCCTCAAGTATCCTCAGGGTTAATCCATCACATTCCTATGCAACTCTCTCAAATGTA
TAAGCAGTCTTTAACAAAAAAAAATATTTAAAAAAAAAAAAAAAAGAAAAAAAAAAAATA
TTAAAATATTTTTTTTAAAATCAATTTTAAATATAAATAATAATGTTTTTTTTTTTTTTA
TAAAAAAAAGAAAGAAAAAAAGAA
sequence update 1998. 1.23
Translated Amino Acid sequence 
n*lkkkkknxkki**vlkwysfnkkkkkxtiisskkkikxkkkkxkkk***aipwdleki
kkfkkkiknnkk*kknkkknf*nspstfwcfc*ANAKVSLSPFALHYSPQAQIISSSTND
APQVSSGLIHHIPMQLSQMYKQSLTKKNI*kkkkkkkkky*niffkinfkyk**cffffy
kkkkekk
Translated Amino Acid sequence (All Frames) 
Frame A:
qlikkkkkkxkknlisfkmv*f**kkkkxhyh***kknkx*kkkx*kkiiisytmglren
kkv*kknkk**kikkk*kkkllklsfyflvllls*c*gvslplcfallssssdnlelh*r
csssilrvnpshsyatlsnv*avfnkkkylkkkkkekkkilkyff*nqf*i*iimffffl
*kkerkke


Frame B:
n*lkkkkknxkki**vlkwysfnkkkkkxtiisskkkikxkkkkxkkk***aipwdleki
kkfkkkiknnkk*kknkkknf*nspstfwcfc*ANAKVSLSPFALHYSPQAQIISSSTND
APQVSSGLIHHIPMQLSQMYKQSLTKKNI*kkkkkkkkky*niffkinfkyk**cffffy
kkkkekk


Frame C:
in*kkkkkixkkfnkf*ngivlikkkkxplslvvkkk*kxkkkkxkknnnklyhgt*rk*
kslkkk*kiiknkkkikkktfktllllfgasvklmlrclsppllcitllklr*srapltm
llkypqg*sitflcnslkcissl*qkkifkkkkkrkkknikifflksilninnnvffffi
kkrkkkr
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSA585 (VSA585Q) /CSM/VS/VSA5-D/VSA585Q.Seq.d/                        387   e-106
SSM728 (SSM728Q) /CSM/SS/SSM7-B/SSM728Q.Seq.d/                        387   e-106
SSM719 (SSM719Q) /CSM/SS/SSM7-A/SSM719Q.Seq.d/                        387   e-106
SSM276 (SSM276Q) /CSM/SS/SSM2-D/SSM276Q.Seq.d/                        387   e-106
SSM269 (SSM269Q) /CSM/SS/SSM2-C/SSM269Q.Seq.d/                        387   e-106
SSM229 (SSM229Q) /CSM/SS/SSM2-B/SSM229Q.Seq.d/                        387   e-106
SSM165 (SSM165Q) /CSM/SS/SSM1-C/SSM165Q.Seq.d/                        387   e-106
SSL845 (SSL845Q) /CSM/SS/SSL8-B/SSL845Q.Seq.d/                        387   e-106
SSL836 (SSL836Q) /CSM/SS/SSL8-B/SSL836Q.Seq.d/                        387   e-106
SSL768 (SSL768Q) /CSM/SS/SSL7-C/SSL768Q.Seq.d/                        387   e-106
own update 2004. 8. 8
Homology vs DNA 

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

D16417|D16417.1 Dictyostelium discoideum mRNA.                   387  e-146  4
CC245494|CC245494.1 CH261-54C11_Sp6.1 CH261 Gallus gallus genomic clone CH261-54C11, DNA sequence.    56  5e-04  1
BM094544|BM094544.1 saj17c12.y1 Gm-c1066 Glycine max cDNA clone GENOME SYSTEMS CLONE ID: Gm-c1066-2832 5', mRNA sequence.    52  0.008  1
AC098059|AC098059.9 Rattus norvegicus clone CH230-126O9, WORKING DRAFT SEQUENCE, 3 unordered pieces.    52  0.008  1
AC120895|AC120895.4 Rattus norvegicus clone CH230-180J3, WORKING DRAFT SEQUENCE, 5 unordered pieces.    50  0.030  1
BZ463651|BZ463651.1 BONRK12TR BO_1.6_2_KB_tot Brassica oleracea genomic clone BONRK12, DNA sequence.    50  0.030  1
AB030651|AB030651.1 Felis catus mRNA for B-lymphocyte activation antigen B7-1 (CD80), complete cds.    38  0.096  2
AC116986|AC116986.2 Dictyostelium discoideum chromosome 2 map 2234041-2567370 strain AX4, complete sequence.    38  0.11  4
BH564896|BH564896.1 BOHIQ68TR BOHI Brassica oleracea genomic clone BOHIQ68, DNA sequence.    48  0.12  1
L43882|L43882.1 Ixodes scapularis (isolate 2, strain Georgia 2) mitochondrial 12S ribosomal RNA (12S rDNA) gene fragment.    48  0.12  1
dna update 2003. 9. 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: 3236559
Number of Hits to DB: 323,302,142
protein update 2009. 7. 7
PSORT 

 psg: 0.90  gvh: 0.38  alm: 0.51  top: 0.37  tms: 0.00  mit: 0.33  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.40  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 %: cytoplasmic
	 36.0 %: nuclear
	 12.0 %: mitochondrial
	  8.0 %: vacuolar
	  4.0 %: cytoskeletal

>> prediction for SSH234 is cyt
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID SSH234E
Full length Seq. 
>SSH234E.Seq
CAATTAATTAAAAAAAAAAAAAAAAAATTNAAAAAAAATTTAATAAGTTTTAAAATGGTA
TAGTTTTAATAAAAAAAAAAAAAAANCCACTATCATTAGTAGTAAAAAAAAAATAAAAAN
TAAAAAAAAAAAAANTAAAAAAAAATAATAATAAGCTATACCATGGGACTTAGAGAAAAT
AAAAAAGTTTAAAAAAAAAATAAAAAATAATAAAAAATAAAAAAAAAATAAAAAAAAAAA
CTTTTAAAACTCTCCTTCTACTTTTTGGTGCTTCTGTTAAGCTAATGCTAAGGTGTCTCT
CTCCCCCTTTGCTTTGCATTACTCTCCTCAAGCTCAGATAATCTCGAGCTCCACTAACGA
TGCTCCTCAAGTATCCTCAGGGTTAATCCATCACATTCCTATGCAACTCTCTCAAATGTA
TAAGCAGTCTTTAACAAAAAAAAATATTTAAAAAAAAAAAAAAAAGAAAAAAAAAAAATA
TTAAAATATTTTTTTTAAAATCAATTTTAAATATAAATAATAATGTTTTTTTTTTTTTTA
TAAAAAAAAGAAAGAAAAAAAGAA
Length of full length seq. 564