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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
SSC258
Library SS
(Link to library)
Clone ID SSC258
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U14989-1
Original site URL
Representative seq. ID SSC258Z
(Link to Original site)
Representative DNA sequence 
>SSC258 (SSC258Q) /CSM/SS/SSC2-C/SSC258Q.Seq.d/
XXXXXXXXXXCCAAGTTTGGGGTCCATTAGCATTGGGNTCCATTACCCCATGGCTTTTAT
CGGAATTTATGGCATTCATGTTACGTGTCTGTAAGACCAGTAACGCTACCAACAAATTGG
TTGTAATGGTAGTATCTTGTCTTCAATGTATTTTGGGTTGTATTGAATCAATCGTTCGTT
GGATCAACAAATTTGGTTACATCTACGTAGCAATGCATGGTCATTCATTCTGTACCTCAA
CAAAGGAATGTTTCGATCTCATCTCTAGAAATATGTTCAATGCTGTCATTATGGATTTCA
TTGGTGGTTTGGTTTTATTATTAGGTAAGATTTTGGGTTCAGCTGCTTCTGCTCTCTTCA
CCACTGCACTCTTGTATGGTATGGGTAAATCTCTCAATCCAATCACTATTGCTCTCTCTG
CAATTTTCGCTTTTTGTATCTTCAATCTTTTCACNCATATCGTTGGTATTGGTACAGACA
CAATCTTTGTTTGTTATCTCGAAGATTTAGAAACCAATAAAGATGGTAATCTCTACATTT
CCCCAGATCTTCACGAACTCTTACAAGATAAATGTAACGAATGTAAAGAAAAAGAACAAA
AAAATCAAAGTAAAGTTTAAATTTTTTTAAAAAAATAAGATATAGTGGAAAATATAAAAA
TAATAATAATAATTACTATTTTTATATTATTATTTTCATTTTTCATTTTCATTTTATTAT
AGTTAATTCATATTGAAATAGTAAAAAAATAAAAAAAATAAAAAAAAAAAATAAAAAAAA
GAATTAATAA
sequence update 1997. 8.29
Translated Amino Acid sequence 
---QVWGPLALGSITPWLLSEFMAFMLRVCKTSNATNKLVVMVVSCLQCILGCIESIVRW
INKFGYIYVAMHGHSFCTSTKECFDLISRNMFNAVIMDFIGGLVLLLGKILGSAASALFT
TALLYGMGKSLNPITIALSAIFAFCIFNLFTHIVGIGTDTIFVCYLEDLETNKDGNLYIS
PDLHELLQDKCNECKEKEQKNQSKV*iflkk*divenikiiiiitifillfsffifill*
lihieivkk*kk*kkkikkrin
Translated Amino Acid sequence (All Frames) 
Frame A:
---QVWGPLALGSITPWLLSEFMAFMLRVCKTSNATNKLVVMVVSCLQCILGCIESIVRW
INKFGYIYVAMHGHSFCTSTKECFDLISRNMFNAVIMDFIGGLVLLLGKILGSAASALFT
TALLYGMGKSLNPITIALSAIFAFCIFNLFTHIVGIGTDTIFVCYLEDLETNKDGNLYIS
PDLHELLQDKCNECKEKEQKNQSKV*iflkk*divenikiiiiitifillfsffifill*
lihieivkk*kk*kkkikkrin


Frame B:
---kfgvh*hwxplphgfyrnlwhscyvsvrpvtlptnwl*w*ylvfnvfwvvlnqsfvg
stnlvtst*qcmvihsvpqqrnvsissleicsmlslwislvvwfyy*vrfwvqllllssp
lhscmvwvnlsiqslllslqfslfvssifsxislvlvqtqslfviski*kpikmvistfp
qiftnsykinvtnvkkknkkikvkfkff*knki*wki*k****llflyyyfhfsfsfyys
*filk**knkknkkkk*kkeli


Frame C:
---slgsisigxhypmafigiygihvtcl*dq*ryqqigcngsilssmyfgly*inrsld
qqiwlhlrsnawsfilylnkgmfrshl*kyvqcchygfhwwfgfiir*dfgfscfcslhh
ctlvwyg*isqsnhycslcnfrflylqsfhxyrwywyrhnlcllsrrfrnq*rw*slhfp
rssrtltr*m*rm*rkrtkksk*slnffkkirysgkyknnnnnyyfyiiififhfhfiiv
nsy*nskkikkikkknkkkn**
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSC258 (SSC258Q) /CSM/SS/SSC2-C/SSC258Q.Seq.d/                       1122   0.0
SSD161 (SSD161Q) /CSM/SS/SSD1-C/SSD161Q.Seq.d/                       1023   0.0
SSL739 (SSL739Q) /CSM/SS/SSL7-B/SSL739Q.Seq.d/                        950   0.0
SSF860 (SSF860Q) /CSM/SS/SSF8-C/SSF860Q.Seq.d/                        860   0.0
AFG833 (AFG833Q) /CSM/AF/AFG8-B/AFG833Q.Seq.d/                        854   0.0
SSA118 (SSA118Q) /CSM/SS/SSA1-A/SSA118Q.Seq.d/                        825   0.0
AFK551 (AFK551Q) /CSM/AF/AFK5-C/AFK551Q.Seq.d/                        769   0.0
VSI877 (VSI877Q) /CSM/VS/VSI8-D/VSI877Q.Seq.d/                        741   0.0
AFN286 (AFN286Q) /CSM/AF/AFN2-D/AFN286Q.Seq.d/                        735   0.0
VFE209 (VFE209Q) /CSM/VF/VFE2-A/VFE209Q.Seq.d/                        731   0.0
own update 2009. 4. 4
Homology vs DNA 

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

AC121655|AC121655.4 Rattus norvegicus clone CH230-301K18, *** SEQUENCING IN PROGRESS ***, 3 unordered pieces.    36  0.96  6
AC103055|AC103055.6 Rattus norvegicus clone CH230-158G20, WORKING DRAFT SEQUENCE, 5 unordered pieces.    36  1.4  4
AC094680|AC094680.5 Rattus norvegicus clone CH230-5G11, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    34  1.5  5
BE881198|BE881198.1 601492071F1 NIH_MGC_69 Homo sapiens cDNA clone IMAGE:3894353 5', mRNA sequence.    44  2.6  1
AC107596|AC107596.5 Rattus norvegicus clone CH230-279A13, *** SEQUENCING IN PROGRESS ***, 4 unordered pieces.    38  2.9  3
AC114137|AC114137.5 Rattus norvegicus clone CH230-138E12, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    36  4.4  5
AC132094|AC132094.3 Mus musculus chromosome 3 clone RP24-376B20, complete sequence.    38  5.4  2
AC115840|AC115840.4 Mus musculus clone RP24-230J5, WORKING DRAFT SEQUENCE, 3 ordered pieces.    42  7.3  2
AC094713|AC094713.5 Rattus norvegicus clone CH230-5M3, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    36  9.0  3
AC127590|AC127590.1 Mus musculus chromosome UNK clone RP23-147I5, WORKING DRAFT SEQUENCE, 7 unordered pieces.    34  9.4  3
dna update 2003. 7.21
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54IJ2) RecName: Full=CTL-like protein DDB_G0288717;                 291   2e-77
BC090749_1(BC090749|pid:none) Danio rerio wu:fc26c03, mRNA (cDNA...    86   1e-15
(A5PF08) RecName: Full=Choline transporter-like protein 4; AltNa...    79   2e-13
(Q91VA1) RecName: Full=Choline transporter-like protein 4; AltNa...    76   1e-12
AK166620_1(AK166620|pid:none) Mus musculus 4 days embryo whole b...    76   1e-12
BC052652_1(BC052652|pid:none) Mus musculus solute carrier family...    76   1e-12
AK008864_1(AK008864|pid:none) Mus musculus adult male stomach cD...    76   1e-12
(Q6MG71) RecName: Full=Choline transporter-like protein 4; AltNa...    75   2e-12
(B5X3W7) RecName: Full=Choline transporter-like protein 2; AltNa...    75   2e-12
BC014659_1(BC014659|pid:none) Homo sapiens solute carrier family...    75   2e-12
protein update 2009. 6. 9
PSORT 

 psg: 0.89  gvh: 0.73  alm: 0.24  top: 0.73  tms: 0.13  mit: 0.25  mip: 0.10
 nuc: 0.00  erl: 0.00  erm: 0.20  pox: 0.30  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: 1.00  m_ : 0.00 

	 32.0 %: endoplasmic reticulum
	 20.0 %: plasma membrane
	 12.0 %: nuclear
	 12.0 %: mitochondrial
	 12.0 %: vacuolar
	  4.0 %: cytoskeletal
	  4.0 %: Golgi
	  4.0 %: cytoplasmic

>> prediction for SSC258 is end
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID SSC258Z
3' end seq. 
>SSC258Z.Seq
----------CCAAGTTTGGGGTCCATTAGCATTGGGNTCCATTACCCCATGGCTTTTAT
CGGAATTTATGGCATTCATGTTACGTGTCTGTAAGACCAGTAACGCTACCAACAAATTGG
TTGTAATGGTAGTATCTTGTCTTCAATGTATTTTGGGTTGTATTGAATCAATCGTTCGTT
GGATCAACAAATTTGGTTACATCTACGTAGCAATGCATGGTCATTCATTCTGTACCTCAA
CAAAGGAATGTTTCGATCTCATCTCTAGAAATATGTTCAATGCTGTCATTATGGATTTCA
TTGGTGGTTTGGTTTTATTATTAGGTAAGATTTTGGGTTCAGCTGCTTCTGCTCTCTTCA
CCACTGCACTCTTGTATGGTATGGGTAAATCTCTCAATCCAATCACTATTGCTCTCTCTG
CAATTTTCGCTTTTTGTATCTTCAATCTTTTCACNCATATCGTTGGTATTGGTACAGACA
CAATCTTTGTTTGTTATCTCGAAGATTTAGAAACCAATAAAGATGGTAATCTCTACATTT
CCCCAGATCTTCACGAACTCTTACAAGATAAATGTAACGAATGTAAAGAAAAAGAACAAA
AAAATCAAAGTAAAGTTTAAATTTTTTTAAAAAAATAAGATATAGTGGAAAATATAAAAA
TAATAATAATAATTACTATTTTTATATTATTATTTTCATTTTTCATTTTCATTTTATTAT
AGTTAATTCATATTGAAATAGTAAAAAAATAAAAAAAATAAAAAAAAAAAATAAAAAAAA
GAATTAATAA
Length of 3' end seq. 780
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -