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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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
SSH842
Library SS
(Link to library)
Clone ID SSH842
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16382-1
Original site URL
Representative seq. ID SSH842E
(Link to Original site)
Representative DNA sequence 
>SSH842 (SSH842Q) /CSM/SS/SSH8-B/SSH842Q.Seq.d/
CACATTCAAATACTTATAAAAAAAAAAGAAAAATTCAAAAAAAATGAGCAAACGAAGTGG
AAGAGACGAATCCATTGTTCCTTCATCATTTAAACACGCAAGAGCATGTACTGAATGTGG
TCTTGTTAAATCAGCTCAACAATTTGAAGATAATGGTTGTGAAAATTGTTCATCATCATC
TTCATCAACAACTCAAAACTTTGAAGGTATTATTGCCATTATGAACCCAAAAGAAAGTTG
GATTGCTAGAAGATTACAATTTGAAAGAAGAGTACCAGGTCTCTATGCATTAAGTATGGA
TTCAGATACAAGAAGATAAAAAAAAAAAAAAGGGCGGCCGCCAC
sequence update 1998. 2. 4
Translated Amino Acid sequence 
tfkyl*KKKKNSKKMSKRSGRDESIVPSSFKHARACTECGLVKSAQQFEDNGCENCSSSS
SSTTQNFEGIIAIMNPKESWIARRLQFERRVPGLYALSMDSDTRR*kkkkgrpp
Translated Amino Acid sequence (All Frames) 
Frame A:
hiqilikkkekfkkneqtkwkrrihcsfii*trksmy*mwsc*issti*r*wl*klfiii
finnskl*ryychyepkrkldc*kiti*kkstrslcikygfrykkikkkkraaa


Frame B:
tfkyl*KKKKNSKKMSKRSGRDESIVPSSFKHARACTECGLVKSAQQFEDNGCENCSSSS
SSTTQNFEGIIAIMNPKESWIARRLQFERRVPGLYALSMDSDTRR*kkkkgrpp


Frame C:
hsntykkkrkiqkk*aneveetnplflhhlntqehvlnvvllnqlnnlkimvvkivhhhl
hqqlktlkvllpl*tqkkvglledynlkeeyqvsmh*vwiqiqedkkkkkggrh
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSH842 (SSH842Q) /CSM/SS/SSH8-B/SSH842Q.Seq.d/                        541   e-153
VSD831 (VSD831Q) /CSM/VS/VSD8-B/VSD831Q.Seq.d/                        529   e-150
SSI753 (SSI753Q) /CSM/SS/SSI7-C/SSI753Q.Seq.d/                        525   e-148
VFH642 (VFH642Q) /CSM/VF/VFH6-B/VFH642Q.Seq.d/                         42   0.005
SHE566 (SHE566Q) /CSM/SH/SHE5-C/SHE566Q.Seq.d/                         42   0.005
SHB347 (SHB347Q) /CSM/SH/SHB3-B/SHB347Q.Seq.d/                         42   0.005
CHO826 (CHO826Q) /CSM/CH/CHO8-B/CHO826Q.Seq.d/                         42   0.005
CHG696 (CHG696Q) /CSM/CH/CHG6-D/CHG696Q.Seq.d/                         42   0.005
CHF623 (CHF623Q) /CSM/CH/CHF6-A/CHF623Q.Seq.d/                         42   0.005
VSI835 (VSI835Q) /CSM/VS/VSI8-B/VSI835Q.Seq.d/                         40   0.021
own update 2002.12.13
Homology vs DNA 

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

BU716103|BU716103.1 SJM2AKH06 SJM Schistosoma japonicum cDNA, mRNA sequence.    50  0.018  1
BE123827|BE123827.1 JAYB0091.GYL Schistosoma japonicum Lambda gt11 Express library Schistosoma japonicum cDNA clone JAYB0091.GY 5', mRNA sequence.    50  0.018  1
BU768563|BU768563.1 SJEBVB08 SJE Schistosoma japonicum cDNA, mRNA sequence.    50  0.018  1
AX348725|AX348725.1 Sequence 183 from Patent WO0202807.           46  0.28  1
AX344318|AX344318.1 Sequence 165 from Patent WO0200926.           46  0.28  1
AX251922|AX251922.1 Sequence 183 from Patent WO0168911.           46  0.28  1
BE787819|BE787819.1 601482809F1 NIH_MGC_68 Homo sapiens cDNA clone IMAGE:3885219 5', mRNA sequence.    36  0.56  2
AL439431|AL439431.1 T7 end of clone BD0AA004E08 of library BD0AA from strain CBS 94 of  Candida tropicalis.    40  0.75  2
AC136953|AC136953.4 Medicago truncatula clone mth2-20h6, WORKING DRAFT SEQUENCE, 7 unordered pieces.    40  0.85  2
AZ670505|AZ670505.1 ENTIC30TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    44  1.1  1
dna update 2003. 9.25
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AY223358_1(AY223358|pid:none) Schistosoma japonicum clone ZZD974...    77   1e-13
EZ000063_1(EZ000063|pid:none) TSA: Schistosoma japonicum SJCHGC0...    77   1e-13
EF148804_1(EF148804|pid:none) Populus trichocarpa x Populus delt...    73   3e-12
EU714066_1(EU714066|pid:none) Thellungiella halophila ST5-18-3 m...    71   1e-11
(Q94C60) RecName: Full=Transcription elongation factor SPT4 homo...    71   1e-11
EF087004_1(EF087004|pid:none) Picea sitchensis clone WS02745_E11...    70   2e-11
AP004341_10(AP004341|pid:none) Oryza sativa Japonica Group genom...    70   3e-11
AP008213_1655(AP008213|pid:none) Oryza sativa (japonica cultivar...    70   3e-11
BT082860_1(BT082860|pid:none) Anoplopoma fimbria clone afim-evh-...    69   4e-11
AK129758_1(AK129758|pid:none) Homo sapiens cDNA FLJ26247 fis, cl...    69   5e-11
protein update 2009. 7. 7
PSORT 

 psg: 0.37  gvh: 0.45  alm: 0.56  top: 0.53  tms: 0.00  mit: 0.39  mip: 0.03
 nuc: 0.04  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 

	 48.0 %: nuclear
	 28.0 %: cytoplasmic
	 16.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: vesicles of secretory system

>> prediction for SSH842 is nuc
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 SSH842E
Full length Seq. 
>SSH842E.Seq
CACATTCAAATACTTATAAAAAAAAAAGAAAAATTCAAAAAAAATGAGCAAACGAAGTGG
AAGAGACGAATCCATTGTTCCTTCATCATTTAAACACGCAAGAGCATGTACTGAATGTGG
TCTTGTTAAATCAGCTCAACAATTTGAAGATAATGGTTGTGAAAATTGTTCATCATCATC
TTCATCAACAACTCAAAACTTTGAAGGTATTATTGCCATTATGAACCCAAAAGAAAGTTG
GATTGCTAGAAGATTACAATTTGAAAGAAGAGTACCAGGTCTCTATGCATTAAGTATGGA
TTCAGATACAAGAAGATAAAAAAAAAAAAAAGGGCGGCCGCCAC
Length of full length seq. 344