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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
SSH724
Library SS
(Link to library)
Clone ID SSH724
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U04708-1
Original site URL
Representative seq. ID SSH724Z
(Link to Original site)
Representative DNA sequence 
>SSH724 (SSH724Q) /CSM/SS/SSH7-A/SSH724Q.Seq.d/
XXXXXXXXXXAAGATAAGAAGAGATGGGAACTCGAAAAGAAAAACTATGATGAAAAATTA
AAAACCCAAAGTCAAGCAGAATCTTCATCCGATAGTTCTGATGAAAGTGATTAAACTTTT
AATTTAATTCACTCAATTATTTGTCACCACTATTACCATCATCATCATCATAATCATCAT
AATCAATTCATTCATCAATCAATCAATTCATCCATCATGTCTACAACCAACTGTGTCACT
CTCTCTTTCTCTCTCTACCTTTGTTGTTTATTTATAAAACCCAAACCAATCAACATTTCA
ACCACTACCAACCAAACAAATAAATAATAATAA
sequence update 1998. 3.12
Translated Amino Acid sequence 
---dkkrwelekknydeklktqsqaesssdssdesd*TFNLIHSIICHHYYHHHHHNHHN
QFIHQSINSSIMSTTNCVTLSFSLYLCCLFIKPKPINISTTTNQTNK***
Translated Amino Acid sequence (All Frames) 
Frame A:
---r*eemgtrkekl**kiknpkssrifir*f**k*lnf*fnslnylspllpssss*ss*
sihssinqfihhvynqlchslflslpllfiyktqtnqhfnhyqpnk*iii


Frame B:
---dkkrwelekknydeklktqsqaesssdssdesd*TFNLIHSIICHHYYHHHHHNHHN
QFIHQSINSSIMSTTNCVTLSFSLYLCCLFIKPKPINISTTTNQTNK***


Frame C:
---irrdgnskrktmmkn*kpkvkqnlhpivlmkviklli*ftqlfvttitiiiiiiiii
nsfinqsihpsclqptvslslslstfvvyl*npnqstfqplptkqinnn
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSE334 (VSE334Q) /CSM/VS/VSE3-B/VSE334Q.Seq.d/                        182   2e-45
VSD226 (VSD226Q) /CSM/VS/VSD2-B/VSD226Q.Seq.d/                        182   2e-45
VSC488 (VSC488Q) /CSM/VS/VSC4-D/VSC488Q.Seq.d/                        182   2e-45
VSA790 (VSA790Q) /CSM/VS/VSA7-D/VSA790Q.Seq.d/                        182   2e-45
SSM615 (SSM615Q) /CSM/SS/SSM6-A/SSM615Q.Seq.d/                        182   2e-45
SSK552 (SSK552Q) /CSM/SS/SSK5-C/SSK552Q.Seq.d/                        182   2e-45
SSJ422 (SSJ422Q) /CSM/SS/SSJ4-A/SSJ422Q.Seq.d/                        182   2e-45
SSH724 (SSH724Q) /CSM/SS/SSH7-A/SSH724Q.Seq.d/                        182   2e-45
SSF827 (SSF827Q) /CSM/SS/SSF8-B/SSF827Q.Seq.d/                        182   2e-45
SSC417 (SSC417Q) /CSM/SS/SSC4-A/SSC417Q.Seq.d/                        176   1e-43
own update 2004.12.25
Homology vs DNA 

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

BZ756791|BZ756791.1 PUFBD54TD ZM_0.6_1.0_KB Zea mays genomic clone ZMMBTa279I12, DNA sequence.    48  0.068  1
BH131533|BH131533.1 ENTOH19TF Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    34  0.62  2
AC141501|AC141501.1 Rattus norvegicus clone CH230-88I8, WORKING DRAFT SEQUENCE, 52 unordered pieces.    40  0.77  3
BH139309|BH139309.1 ENTNK73TF Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    44  1.1  1
BH155088|BH155088.1 ENTTM04TF Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    44  1.1  1
AZ678572|AZ678572.1 ENTMS15TR Entamoeba histolytica Sheared DNA Entamoeba histolytica genomic, DNA sequence.    44  1.1  1
BU927237|BU927237.1 sas97b11.y1 Gm-c1036 Glycine max cDNA clone SOYBEAN CLONE ID: Gm-c1036-11997 5', mRNA sequence.    40  1.5  2
AL805905|AL805905.5 Zebrafish DNA sequence from clone CH211-214D15 in linkage group 18  Contains a novel gene and three CpG islands.    42  2.3  3
AC095156|AC095156.6 Rattus norvegicus clone CH230-8M21, *** SEQUENCING IN PROGRESS ***, 10 unordered pieces.    40  3.8  3
BX294394|BX294394.4 Mouse DNA sequence from clone RP24-63F2 on chromosome 2.    42  4.0  2
dna update 2003. 8. 8
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: 351,714,408
protein update 2009. 6.13
PSORT 

 psg: 0.84  gvh: 0.49  alm: 0.33  top: 0.73  tms: 0.00  mit: 0.55  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 

	 80.0 %: mitochondrial
	 12.0 %: nuclear
	  8.0 %: cytoplasmic

>> prediction for SSH724 is mit
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID SSH724Z
3' end seq. 
>SSH724Z.Seq
----------AAGATAAGAAGAGATGGGAACTCGAAAAGAAAAACTATGATGAAAAATTA
AAAACCCAAAGTCAAGCAGAATCTTCATCCGATAGTTCTGATGAAAGTGATTAAACTTTT
AATTTAATTCACTCAATTATTTGTCACCACTATTACCATCATCATCATCATAATCATCAT
AATCAATTCATTCATCAATCAATCAATTCATCCATCATGTCTACAACCAACTGTGTCACT
CTCTCTTTCTCTCTCTACCTTTGTTGTTTATTTATAAAACCCAAACCAATCAACATTTCA
ACCACTACCAACCAAACAAATAAATAATAATAA
Length of 3' end seq. 323
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -