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Dicty_cDB
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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
SSH477
Library SS
(Link to library)
Clone ID SSH477
Atlas ID -
NBRP ID
dictyBase ID
Link to Contig Contig-U05359-1
Original site URL
Representative seq. ID SSH477F
(Link to Original site)
Representative DNA sequence 
>SSH477 (SSH477Q) /CSM/SS/SSH4-D/SSH477Q.Seq.d/
ATAAAATCAAATTTTAAAAATAAAAAATAAATAAAATAATTAATTATTAAACTAAAAAAA
AACAAAAAAAAAAAAAAAAAAAAAAATATTTATAATTATAAAATGTTTCTTAAATTATTA
ATTTCATTATCAAATAAAAAGAATTCTTCATTAAATTCAATTTCAAATGAATTTAATAAT
AACTTAAATTATTCAATTAATAATATTTCAAATAAAAATTCAATTACATCCGTTTCATAT
TTTACAAGACCAAATTTTGTAAATTATTAATTTATTAATTXXXXXXXXXX
sequence update 1999. 1.17
Translated Amino Acid sequence 
iksnfknkk*ik*LIIKLKKNKKKKKKKNIYNYKMFLKLLISLSNKKNSSLNSISNEFNN
NLNYSINNISNKNSITSVSYFTRPNFVNY*fin---
Translated Amino Acid sequence (All Frames) 
Frame A:
iksnfknkk*ik*LIIKLKKNKKKKKKKNIYNYKMFLKLLISLSNKKNSSLNSISNEFNN
NLNYSINNISNKNSITSVSYFTRPNFVNY*fin---


Frame B:
*nqilkiknk*nn*lln*kktkkkkkkkifiiikcflny*fhyqikrilh*iqfqmnlii
t*iiqliifqikiqlhpfhilqdqil*iinll---


Frame C:
kikf*k*kinkiiny*tkkkqkkkkkkkyl*l*nvs*iinfiik*keffikfnfk*i***
lklfn**yfk*kfnyirfifyktkfcklliy*---
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSH477 (SSH477Q) /CSM/SS/SSH4-D/SSH477Q.Seq.d/                        133   2e-30
SSL641 (SSL641Q) /CSM/SS/SSL6-B/SSL641Q.Seq.d/                         48   7e-05
SSJ135 (SSJ135Q) /CSM/SS/SSJ1-B/SSJ135Q.Seq.d/                         48   7e-05
CHI424 (CHI424Q) /CSM/CH/CHI4-A/CHI424Q.Seq.d/                         48   7e-05
SSF836 (SSF836Q) /CSM/SS/SSF8-B/SSF836Q.Seq.d/                         44   0.001
SFJ258 (SFJ258Q) /CSM/SF/SFJ2-C/SFJ258Q.Seq.d/                         44   0.001
SFC243 (SFC243Q) /CSM/SF/SFC2-B/SFC243Q.Seq.d/                         44   0.001
SFB577 (SFB577Q) /CSM/SF/SFB5-D/SFB577Q.Seq.d/                         44   0.001
CHB274 (CHB274Q) /CSM/CH/CHB2-D/CHB274Q.Seq.d/                         44   0.001
CFJ184 (CFJ184Q) /CSM/CF/CFJ1-D/CFJ184Q.Seq.d/                         44   0.001
own update 2004.12.25
Homology vs DNA 

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

AC114263|AC114263.2 Dictyostelium discoideum chromosome 2 map 215673-367476 strain AX4, complete sequence.   133  2e-47  3
AC116550|AC116550.2 Dictyostelium discoideum chromosome 2 map 375056-387392 strain AX4, complete sequence.    62  2e-10  3
AC015236|AC015236.1 Drosophila melanogaster, *** SEQUENCING IN PROGRESS ***, in ordered pieces.    38  0.002  3
AC116989|AC116989.2 Dictyostelium discoideum chromosome 2 map complement(3527391-3470188) strain AX4, complete sequence.    36  0.003  6
AC116551|AC116551.2 Dictyostelium discoideum chromosome 2 map complement(581327-427576) strain AX4, complete sequence.    48  0.024  7
AF402141|AF402141.1 Schizophyllum commune mitochondrial DNA, complete genome.    44  0.025  2
AC114394|AC114394.1 Drosophila melanogaster, chromosome 4, region 101B-101C, BAC clone BACR33O09, complete sequence.    38  0.029  3
V00695|V00695.1 Yeast mitochondrial tRNA genes (several, map positions 3.5 to 8.6) encoding tRNAs for Lys, Arg, Gly, Asp, Ser, Arg, and Ala.    34  0.069  3
AX392735|AX392735.1 Sequence 25 from Patent WO0212526.            38  0.11  4
AJ011856|AJ011856.1 Saccharomyces cerevisiae complete mitochondrial genome.    34  0.13  6
dna update 2003. 7.27
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: 103,381,751
protein update 2009. 6.12
PSORT 

 psg: 0.32  gvh: 0.39  alm: 0.54  top: 0.53  tms: 0.00  mit: 0.35  mip: 0.00
 nuc: 0.28  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 

	 72.0 %: nuclear
	 20.0 %: cytoplasmic
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for SSH477 is nuc
5' end seq. ID SSH477F
5' end seq. 
>SSH477F.Seq
ATAAAATCAAATTTTAAAAATAAAAAATAAATAAAATAATTAATTATTAAACTAAAAAAA
AACAAAAAAAAAAAAAAAAAAAAAAATATTTATAATTATAAAATGTTTCTTAAATTATTA
ATTTCATTATCAAATAAAAAGAATTCTTCATTAAATTCAATTTCAAATGAATTTAATAAT
AACTTAAATTATTCAATTAATAATATTTCAAATAAAAATTCAATTACATCCGTTTCATAT
TTTACAAGACCAAATTTTGTAAATTATTAATTTATTAATT----------
Length of 5' end seq. 280
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 -
Full length Seq. -
Length of full length seq. -