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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
SSH260
Library SS
(Link to library)
Clone ID SSH260
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15823-1
Original site URL
Representative seq. ID SSH260Z
(Link to Original site)
Representative DNA sequence 
>SSH260 (SSH260Q) /CSM/SS/SSH2-C/SSH260Q.Seq.d/
XXXXXXXXXXTGGGGCTCTTTAAGGGGATTTATTAGTGATGTTGTCAATATCGATTATTT
GGAATCAAAATCATCTGAAGCTGCCCCAGCATCTTCTGCAAGTAAAAAGGAAAAGAAGAA
AGAAAAGAAGAAAGCAAAACATTCAAAACATACATGTAGTCCATCTGATACCATTTTAAT
GGATACTAAACAATTAGAACCAAATTCAACTTTATATCCAAAACAAACTGATCCAATTAC
TTCATTAGGTACTTGGAAAGAAGTTACAAAACAAATTGTTGCAGGTGATATGCAAGCAGC
AGATCAAATTAAAAAAGAAATTGAAGATGAACAAAGAAAGAGATTACAAATTACCAAAGA
GGAAGAAAAGAAAGAAAGAGCTTACTTTAAATATAATGATGATAAAGGGATTTGGGAATT
TAAATCAACCCAAACATTAGCTCCAGTTTCAAATTCAACAAGTAGTACTGCTTCTGATGC
TGCAAGTGGTAGTAATTAATTAAAATATATTATTAGAAATGATTCAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
sequence update 1997.12.11
Translated Amino Acid sequence 
---GSLRGFISDVVNIDYLESKSSEAAPASSASKKEKKKEKKKAKHSKHTCSPSDTILMD
TKQLEPNSTLYPKQTDPITSLGTWKEVTKQIVAGDMQAADQIKKEIEDEQRKRLQITKEE
EKKERAYFKYNDDKGIWEFKSTQTLAPVSNSTSSTASDAASGSN*lkyiirndskkkkkk
kkkkkkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
---gal*gdllvmlsisiiwnqnhlklpqhllqvkrkrrkkrrkqniqnihvvhlipf*w
ilnn*nqiqlyiqnkliqllh*vlgkklqnkllqvickqqiklkkklkmnkerdyklpkr
kkrkkeltlnimmikgfgnlnqpkh*lqfqiqqvvlllmlqvvvin*nillemiqkkkkk
kkkkkkkkk


Frame B:
---glfkgiy**ccqyrlfgikii*scpsifck*kgkeerkeesktfktym*si*yhfng
y*tirtkfnfisktn*snyfirylersyktnccr*yassrsn*krn*r*tkkeitnyqrg
rkerksll*i****rdlgi*inpnisssfkfnk*ycf*cckw**likiyy*k*fkkkkkk
kkkkkkkkk


Frame C:
---GSLRGFISDVVNIDYLESKSSEAAPASSASKKEKKKEKKKAKHSKHTCSPSDTILMD
TKQLEPNSTLYPKQTDPITSLGTWKEVTKQIVAGDMQAADQIKKEIEDEQRKRLQITKEE
EKKERAYFKYNDDKGIWEFKSTQTLAPVSNSTSSTASDAASGSN*lkyiirndskkkkkk
kkkkkkkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFM546 (VFM546Q) /CSM/VF/VFM5-B/VFM546Q.Seq.d/                        361   8e-99
VFL579 (VFL579Q) /CSM/VF/VFL5-D/VFL579Q.Seq.d/                        361   8e-99
VFF363 (VFF363Q) /CSM/VF/VFF3-C/VFF363Q.Seq.d/                        361   8e-99
SSL121 (SSL121Q) /CSM/SS/SSL1-A/SSL121Q.Seq.d/                        361   8e-99
SSH260 (SSH260Q) /CSM/SS/SSH2-C/SSH260Q.Seq.d/                        361   8e-99
SSG428 (SSG428Q) /CSM/SS/SSG4-B/SSG428Q.Seq.d/                        361   8e-99
SSF603 (SSF603Q) /CSM/SS/SSF6-A/SSF603Q.Seq.d/                        361   8e-99
SSA541 (SSA541Q) /CSM/SS/SSA5-B/SSA541Q.Seq.d/                        361   8e-99
SLH725 (SLH725Q) /CSM/SL/SLH7-B/SLH725Q.Seq.d/                        361   8e-99
SFB339 (SFB339Q) /CSM/SF/SFB3-B/SFB339Q.Seq.d/                        361   8e-99
own update 2004.12.25
Homology vs DNA 

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

AE014829|AE014829.1 Plasmodium falciparum 3D7 chromosome 10 section 1 of 7 of the complete sequence.    36   6e-04  9
AL034558|AL034558.3 Plasmodium falciparum MAL3P2.                  38   0.005  7
AC131294|AC131294.2 Homo sapiens chromosome 11 clone RP13-427K10 map 11, LOW-PASS SEQUENCE SAMPLING.    40   0.016  4
AC116957|AC116957.2 Dictyostelium discoideum chromosome 2 map 1685067-2090751 strain AX4, complete sequence.    30   0.016  15
AL929356|AL929356.1 Plasmodium falciparum strain 3D7, chromosome 9; segment 2/5.    32   0.021  11
AC116986|AC116986.2 Dictyostelium discoideum chromosome 2 map 2234041-2567370 strain AX4, complete sequence.    32   0.058  11
AC116977|AC116977.2 Dictyostelium discoideum chromosome 2 map 5515173-5817331 strain AX4, complete sequence.    32   0.079  11
BX936329|BX936329.2 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone  CH211-1F1.    46   0.18   6
AC064802|AC064802.4 Homo sapiens chromosome 11, clone RP11-267L5, complete sequence.    38   0.22   6
BX465189|BX465189.5 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone.    34   0.22   5
dna update 2004. 2.14
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54RM1) RecName: Full=Oxysterol-binding protein 7; AltName: Ful...   218   9e-56
AB070092_1(AB070092|pid:none) Macaca fascicularis testis cDNA cl...    41   0.019
AB209872_1(AB209872|pid:none) Homo sapiens mRNA for oxysterol-bi...    40   0.043
AK304067_1(AK304067|pid:none) Homo sapiens cDNA FLJ58351 complet...    40   0.043
AK000370_1(AK000370|pid:none) Homo sapiens cDNA FLJ20363 fis, cl...    40   0.043
(Q9BXB5) RecName: Full=Oxysterol-binding protein-related protein...    40   0.043
AK097503_1(AK097503|pid:none) Homo sapiens cDNA FLJ40184 fis, cl...    40   0.043
BC027256_1(BC027256|pid:none) Mus musculus oxysterol binding pro...    39   0.074
CP000764_3458(CP000764|pid:none) Bacillus cereus subsp. cytotoxi...    39   0.097
AM920433_128(AM920433|pid:none) Penicillium chrysogenum Wisconsi...    39   0.097
protein update 2009. 6.12
PSORT 

 psg: 0.63  gvh: 0.37  alm: 0.55  top: 0.53  tms: 0.00  mit: 0.25  mip: 0.02
 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: 0.50
 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 

	 40.0 %: nuclear
	 32.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  8.0 %: Golgi
	  4.0 %: vesicles of secretory system

>> prediction for SSH260 is nuc
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID SSH260Z
3' end seq. 
>SSH260Z.Seq
----------TGGGGCTCTTTAAGGGGATTTATTAGTGATGTTGTCAATATCGATTATTT
GGAATCAAAATCATCTGAAGCTGCCCCAGCATCTTCTGCAAGTAAAAAGGAAAAGAAGAA
AGAAAAGAAGAAAGCAAAACATTCAAAACATACATGTAGTCCATCTGATACCATTTTAAT
GGATACTAAACAATTAGAACCAAATTCAACTTTATATCCAAAACAAACTGATCCAATTAC
TTCATTAGGTACTTGGAAAGAAGTTACAAAACAAATTGTTGCAGGTGATATGCAAGCAGC
AGATCAAATTAAAAAAGAAATTGAAGATGAACAAAGAAAGAGATTACAAATTACCAAAGA
GGAAGAAAAGAAAGAAAGAGCTTACTTTAAATATAATGATGATAAAGGGATTTGGGAATT
TAAATCAACCCAAACATTAGCTCCAGTTTCAAATTCAACAAGTAGTACTGCTTCTGATGC
TGCAAGTGGTAGTAATTAATTAAAATATATTATTAGAAATGATTCAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Length of 3' end seq. 561
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -