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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
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SHL527
Library SH
(Link to library)
Clone ID SHL527
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11791-1
Original site URL
Representative seq. ID
(Link to Original site)
Representative DNA sequence 
>SHL527 (SHL527Q) /CSM/SH/SHL5-B/SHL527Q.Seq.d/
ATAGAAATAAATTATATCTTTTATAATTATAATTTTAATAAATATAAAATTCCGATAAAA
TATAAATTGTTAAGAATATAGATAGATAAAATAAAGATAAACAATTGAAAAAAAAAAXXX
XXXXXXX
sequence update 2002.10.25
Translated Amino Acid sequence 
IEINYIFYNYNFNKYKIPIKYKLLRI*idkikinn*kk---
Translated Amino Acid sequence (All Frames) 
Frame A:
IEINYIFYNYNFNKYKIPIKYKLLRI*idkikinn*kk---


Frame B:
*k*iisfiiiilinikfr*ninc*eyr*ik*r*tiekk---


Frame C:
rnklyll*l*f**i*nsdki*ivknidr*nkdkqlkkk---
Homology vs CSM-cDNA 

 ***** No hits found ******

Lambda     K      H
    1.37    0.711     1.31

Gapped
Lambda     K      H
    1.37    0.711     1.31

Matrix: blastn matrix:1 -3
Gap Penalties: Existence: 5, Extension: 2
Number of Hits to DB: 721
Number of Sequences: 97611
Number of extensions: 721
Number of successful extensions: 377
Number of sequences better than 10.0: 0
Number of HSP's better than 10.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 377
Number of HSP's gapped (non-prelim): 0
length of query: 127
length of database: 80,480,566
effective HSP length: 17
effective length of query: 110
effective length of database: 78,821,179
effective search space: 8670329690
effective search space used: 8670329690
T: 0
A: 0
X1: 6 (11.9 bits)
X2: 15 (29.7 bits)
S1: 12 (24.3 bits)
S2: 15 (30.2 bits)







Dictyostelium discoideum cDNA Project Home
own update 2009. 4. 4
Homology vs DNA -
dna update 2006. 7.23
Homology vs Protein 

 ***** No hits found ******

Lambda     K      H
   0.310    0.147    0.328

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3101297
Number of Hits to DB: 54,568,965
protein update 2009. 5.31
PSORT 

 psg: 0.75  gvh: -0.11  alm: 0.65  top: 0.53  tms: 0.00  mit: 0.29  mip: 0.00
 nuc: 0.00  erl: 0.00  erm: 0.20  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
	 36.0 %: cytoplasmic
	 12.0 %: mitochondrial
	  4.0 %: cytoskeletal

>> prediction for SHL527 is nuc
5' end seq. ID SHL527F
5' end seq. 
>SHL527F.Seq
ATAGAAATAAATTATATCTTTTATAATTATAATTTTAATAAATATAAAATTCCGATAAAA
TATAAATTGTTAAGAATATAGATAGATAAAATAAAGATAAACAATTGAAAAAAAAAANNN
NNNNNNN
Length of 5' end seq. 127
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. -