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
SSB353
Library SS
(Link to library)
Clone ID SSB353
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16580-1
Original site URL
Representative seq. ID SSB353Z
(Link to Original site)
Representative DNA sequence 
>SSB353 (SSB353Q) /CSM/SS/SSB3-C/SSB353Q.Seq.d/
XXXXXXXXXXAAAAAAAAAAAAAAAGGAAAAAAAAAAAATATTAAAATATTTTTTTTAAA
ATNAATTTTAAATATAAATAATAATGTTTTTTTTTTTTTTATAAAAAAAAGAAAGAAAAA
AAGAAAAAAAAAAAAAAAAGAAAAAAAGAATTTAAAAAAAAAAAAAAAAATAGAAAAAAA
AAAGTTAAAGATGTAATGGTAAAACCAAAGTAGAATGGAAATCCAAAAAAAGATCTTTAT
AAATTGCCACTATAATCAATGTATAGATATTGTTCCGTCTGTGTGTATGCTGTTAGGTCC
AGTTTGCTCTTTAGTTACTTTAATTTAAATCTATATTGTAATTTTTATAAAAAAAAAAAA
AAGAAAAAAAAAAACAAA
sequence update 1997. 7.29
Translated Amino Acid sequence 
---KKKKGKKKNIKIFFLKXILNINNNVFFFFIKKRKKKRKKKKKEKKNLKKKKKIEKKK
LKM*w*nqsrmeiqkkifinchynqcidivpsvcmllgpvcslvtli*iyivifikkkkr
kkkt
Translated Amino Acid sequence (All Frames) 
Frame A:
---kkkkkekkkilkyff*nxf*i*iimffffl*kkerkkekkkkkkkri*kkkkk*kkk
s*rcngktkvewkskkrsl*iatiinv*ilfrlcvcc*vqfal*ll*fksil*fl*kkkk
ekkkq


Frame B:
---kkkkrkkkky*niffkxnfkyk**cffffykkkkekkkkkkkrkkefkkkkknrkkk
vkdvmvkpk*ngnpkkdlyklpl*smyrycsvcvyavrssllfsyfnlnlycnfykkkkk
kkknk


Frame C:
---KKKKGKKKNIKIFFLKXILNINNNVFFFFIKKRKKKRKKKKKEKKNLKKKKKIEKKK
LKM*w*nqsrmeiqkkifinchynqcidivpsvcmllgpvcslvtli*iyivifikkkkr
kkkt
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSM852 (SSM852Q) /CSM/SS/SSM8-C/SSM852Q.Seq.d/                        285   2e-76
SSM834 (SSM834Q) /CSM/SS/SSM8-B/SSM834Q.Seq.d/                        285   2e-76
SSM790 (SSM790Q) /CSM/SS/SSM7-D/SSM790Q.Seq.d/                        285   2e-76
SSM712 (SSM712Q) /CSM/SS/SSM7-A/SSM712Q.Seq.d/                        285   2e-76
SSM626 (SSM626Q) /CSM/SS/SSM6-B/SSM626Q.Seq.d/                        285   2e-76
SSM515 (SSM515Q) /CSM/SS/SSM5-A/SSM515Q.Seq.d/                        285   2e-76
SSM501 (SSM501Q) /CSM/SS/SSM5-A/SSM501Q.Seq.d/                        285   2e-76
SSM491 (SSM491Q) /CSM/SS/SSM4-D/SSM491Q.Seq.d/                        285   2e-76
SSM425 (SSM425Q) /CSM/SS/SSM4-B/SSM425Q.Seq.d/                        285   2e-76
SSM383 (SSM383Q) /CSM/SS/SSM3-D/SSM383Q.Seq.d/                        285   2e-76
own update 2001. 8.27
Homology vs DNA 

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

D16417|D16417.1 Dictyostelium discoideum mRNA.                   232  2e-93  3
AX348899|AX348899.1 Sequence 357 from Patent WO0202807.           36  0.005  4
AX344490|AX344490.1 Sequence 337 from Patent WO0200926.           36  0.005  4
L43882|L43882.1 Ixodes scapularis (isolate 2, strain Georgia 2) mitochondrial 12S ribosomal RNA (12S rDNA) gene fragment.    50  0.019  1
CC245494|CC245494.1 CH261-54C11_Sp6.1 CH261 Gallus gallus genomic clone CH261-54C11, DNA sequence.    50  0.019  1
BH564896|BH564896.1 BOHIQ68TR BOHI Brassica oleracea genomic clone BOHIQ68, DNA sequence.    50  0.019  1
X05979|X05979.1 Pea ELIP gene for plastid early-light-induced protein.    42  0.045  2
BZ693514|BZ693514.1 SP__Ba0035G21.r SP__Ba Sorghum propinquum genomic clone SP__Ba0035G21 3', genomic survey sequence.    38  0.072  2
BZ490159|BZ490159.1 BONHN63TF BO_1.6_2_KB_tot Brassica oleracea genomic clone BONHN63, DNA sequence.    48  0.076  1
U80441|U80441.1 Caenorhabditis elegans cosmid F27C1.    48  0.076  1
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: 3159261
Number of Hits to DB: 243,346,877
protein update 2009. 6. 8
PSORT 

 psg: 0.86  gvh: 0.21  alm: 0.41  top: 0.33  tms: 0.00  mit: 0.36  mip: 0.07
 nuc: 1.75  erl: 0.00  erm: 0.60  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 

	 72.0 %: nuclear
	 16.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for SSB353 is nuc
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID SSB353Z
3' end seq. 
>SSB353Z.Seq
----------AAAAAAAAAAAAAAAGGAAAAAAAAAAAATATTAAAATATTTTTTTTAAA
ATNAATTTTAAATATAAATAATAATGTTTTTTTTTTTTTTATAAAAAAAAGAAAGAAAAA
AAGAAAAAAAAAAAAAAAAGAAAAAAAGAATTTAAAAAAAAAAAAAAAAATAGAAAAAAA
AAAGTTAAAGATGTAATGGTAAAACCAAAGTAGAATGGAAATCCAAAAAAAGATCTTTAT
AAATTGCCACTATAATCAATGTATAGATATTGTTCCGTCTGTGTGTATGCTGTTAGGTCC
AGTTTGCTCTTTAGTTACTTTAATTTAAATCTATATTGTAATTTTTATAAAAAAAAAAAA
AAGAAAAAAAAAAACAAA
Length of 3' end seq. 368
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -