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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
SSC534
Library SS
(Link to library)
Clone ID SSC534
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13922-1
Original site URL
Representative seq. ID SSC534Z
(Link to Original site)
Representative DNA sequence 
>SSC534 (SSC534Q) /CSM/SS/SSC5-B/SSC534Q.Seq.d/
XXXXXXXXXXTTCATTAAATTCATCATCCTCATCCACCATCTCAAAGAGTAATAGCAATC
AAAGCNTTGCAAAGGAAACCAGTAGTAACAACCTCTTGCAATATCAATCACCAGTTAGAG
TAGCCAGCTCAACATCATCTGAGAATTTAGTCGATAGTGCTTCCATTATGAACAACGTTG
ATTCTCATACCTCTGAAGAGAAAATGAAGCAAGAGGCAAAGAGATTAGAAAGATGGGGTT
TAAAGATTAACTCACCAACTGCTACCTCACCAAGCACTACCTCACCACCAGTCTCTAGTA
CCACTCCGGTTGCACCAGTGACTCCAACCGAACAATCTGTACCACAATCTCCATTCTCAA
CTGGTGCTGCCGTCTCTGTCAATCAAAGTCATAGCAATCTCCCAATCGCTACTACCCAAC
AATTCCTTGATCGTATCGTTCTCTCTGCTAAATCCGTTAAACAAATCATTCAAAAGAAAA
CCTCTAATCGTGATATTGTCATCTCTATTCTCATGGATTTAGTAAAGGAATCTGCAAACT
TTGGTATGACTCTCTCTTCAACTACCCCAATGTCTTTCGATATCTCTCAAAATGCTGGTA
AACTCGCTGGTGCTGTCAATGAATTAGTTAAAGACACTGCTCACGAAAATAATAAAATCT
TTGATGAAATTCAAGTACTCTTAGGTTTATTATATTTAGCTGTTGTTGCTAATTAGAGAA
A
sequence update 1997. 8.14
Translated Amino Acid sequence 
---SLNSSSSSTISKSNSNQSXAKETSSNNLLQYQSPVRVASSTSSENLVDSASIMNNVD
SHTSEEKMKQEAKRLERWGLKINSPTATSPSTTSPPVSSTTPVAPVTPTEQSVPQSPFST
GAAVSVNQSHSNLPIATTQQFLDRIVLSAKSVKQIIQKKTSNRDIVISILMDLVKESANF
GMTLSSTTPMSFDISQNAGKLAGAVNELVKDTAHENNKIFDEIQVLLGLLYLAVVAN*r
Translated Amino Acid sequence (All Frames) 
Frame A:
---SLNSSSSSTISKSNSNQSXAKETSSNNLLQYQSPVRVASSTSSENLVDSASIMNNVD
SHTSEEKMKQEAKRLERWGLKINSPTATSPSTTSPPVSSTTPVAPVTPTEQSVPQSPFST
GAAVSVNQSHSNLPIATTQQFLDRIVLSAKSVKQIIQKKTSNRDIVISILMDLVKESANF
GMTLSSTTPMSFDISQNAGKLAGAVNELVKDTAHENNKIFDEIQVLLGLLYLAVVAN*r


Frame B:
---h*ihhphppsqrviaikalqrkpvvttscninhqle*paqhhlri*sivlpl*ttli
liplkrk*skrqrd*kdgv*rlthqllphqalphhqslvplrlhq*lqpnnlyhnlhsql
vlpslsikviaisqsllpnnslivsfsllnplnksfkrkplivilsslfswi**rnlqtl
v*lslqlpqclsislkmlvnslvlsmn*lktlltkiikslmkfkys*vyyi*llllire


Frame C:
---ikfiilihhlke**qskxckgnq**qplaisits*ssqlnii*efsr*cfhyeqr*f
syl*reneargkeirkmgfkd*ltncyltkhylttsl*yhsgctsdsnrticttisilnw
ccrlcqsks*qspnryyptip*syrslc*ir*tnhskenl*s*ychlyshgfskgicklw
ydslfnypnvfrylskcw*trwccq*is*rhcsrk**nl**nsstlrfiifsccc*lek
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSC534 (SSC534Q) /CSM/SS/SSC5-B/SSC534Q.Seq.d/                       1403   0.0
SSC538 (SSC538Q) /CSM/SS/SSC5-B/SSC538Q.Seq.d/                       1398   0.0
SFC268 (SFC268Q) /CSM/SF/SFC2-C/SFC268Q.Seq.d/                       1316   0.0
CFA872 (CFA872Q) /CSM/CF/CFA8-C/CFA872Q.Seq.d/                       1279   0.0
SLA529 (SLA529Q) /CSM/SL/SLA5-B/SLA529Q.Seq.d/                       1267   0.0
SFG704 (SFG704Q) /CSM/SF/SFG7-A/SFG704Q.Seq.d/                       1267   0.0
SLC832 (SLC832Q) /CSM/SL/SLC8-B/SLC832Q.Seq.d/                       1251   0.0
CHD103 (CHD103Q) /CSM/CH/CHD1-A/CHD103Q.Seq.d/                       1162   0.0
VFL163 (VFL163Q) /CSM/VF/VFL1-C/VFL163Q.Seq.d/                       1128   0.0
AFF249 (AFF249Q) /CSM/AF/AFF2-C/AFF249Q.Seq.d/                       1102   0.0
own update 2004.12.25
Homology vs DNA 

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

AF222688|AF222688.1 Dictyostelium discoideum dynacortin (dct) mRNA, complete cds.  1396  0.0  1
AC130930|AC130930.4 Rattus norvegicus clone CH230-483N21, WORKING DRAFT SEQUENCE, 4 unordered pieces.    36  2.2  4
AC094024|AC094024.7 Rattus norvegicus clone CH230-5O11, WORKING DRAFT SEQUENCE, 1 ordered piece.    44  2.3  1
AC019295|AC019295.3 Homo sapiens clone RP11-24O11, WORKING DRAFT SEQUENCE, 5 unordered pieces.    44  2.3  1
BX119902|BX119902.3 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-137I24.    44  2.3  1
AC114441|AC114441.5 Rattus norvegicus clone CH230-116K24, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    44  2.3  1
AC083781|AC083781.2 Homo sapiens chromosome 1 clone RP11-225N18 map 1, WORKING DRAFT SEQUENCE, 11 unordered pieces.    44  2.3  1
AC140082|AC140082.2 Rattus norvegicus clone CH230-223J12 strain Brown Norway, WORKING DRAFT SEQUENCE, 8 ordered pieces.    44  2.3  1
AJ131136|AJ131136.1 Marsilea drummondii, mitochondrial nad5 gene, partial.    44  2.3  1
AC100613|AC100613.1 Mus musculus clone RP23-160F24, LOW-PASS SEQUENCE SAMPLING.    40  2.8  3
dna update 2003. 7.28
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AF222688_1(AF222688|pid:none) Dictyostelium discoideum dynacorti...   326   4e-88
CP000090_1303(CP000090|pid:none) Ralstonia eutropha JMP134 chrom...    37   0.78
CP001408_431(CP001408|pid:none) Burkholderia pseudomallei MSHR34...    36   1.3
FM992688_1247(FM992688|pid:none) Candida dubliniensis CD36 chrom...    35   3.0
EU565733_1(EU565733|pid:none) Uncultured soil bacterium clone gl...    35   3.0
CP000010_2763(CP000010|pid:none) Burkholderia mallei ATCC 23344 ...    34   3.9
CP000526_104(CP000526|pid:none) Burkholderia mallei SAVP1 chromo...    34   3.9
CP000151_2972(CP000151|pid:none) Burkholderia sp. 383 chromosome...    34   5.0
AP009385_2728(AP009385|pid:none) Burkholderia multivorans ATCC 1...    33   6.6
AM260479_1383(AM260479|pid:none) Ralstonia eutropha H16 chromoso...    33   6.6
protein update 2009. 6. 9
PSORT 

 psg: 0.84  gvh: 0.39  alm: 0.30  top: 0.63  tms: 0.07  mit: 0.39  mip: 0.07
 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: 1.00  tyr: 0.00  leu: 0.02  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: 1.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 20.0 %: cytoplasmic
	 20.0 %: nuclear
	 16.0 %: vesicles of secretory system
	 12.0 %: mitochondrial
	  8.0 %: Golgi
	  8.0 %: endoplasmic reticulum
	  4.0 %: extracellular, including cell wall
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: plasma membrane

>> prediction for SSC534 is cyt
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID SSC534Z
3' end seq. 
>SSC534Z.Seq
----------TTCATTAAATTCATCATCCTCATCCACCATCTCAAAGAGTAATAGCAATC
AAAGCNTTGCAAAGGAAACCAGTAGTAACAACCTCTTGCAATATCAATCACCAGTTAGAG
TAGCCAGCTCAACATCATCTGAGAATTTAGTCGATAGTGCTTCCATTATGAACAACGTTG
ATTCTCATACCTCTGAAGAGAAAATGAAGCAAGAGGCAAAGAGATTAGAAAGATGGGGTT
TAAAGATTAACTCACCAACTGCTACCTCACCAAGCACTACCTCACCACCAGTCTCTAGTA
CCACTCCGGTTGCACCAGTGACTCCAACCGAACAATCTGTACCACAATCTCCATTCTCAA
CTGGTGCTGCCGTCTCTGTCAATCAAAGTCATAGCAATCTCCCAATCGCTACTACCCAAC
AATTCCTTGATCGTATCGTTCTCTCTGCTAAATCCGTTAAACAAATCATTCAAAAGAAAA
CCTCTAATCGTGATATTGTCATCTCTATTCTCATGGATTTAGTAAAGGAATCTGCAAACT
TTGGTATGACTCTCTCTTCAACTACCCCAATGTCTTTCGATATCTCTCAAAATGCTGGTA
AACTCGCTGGTGCTGTCAATGAATTAGTTAAAGACACTGCTCACGAAAATAATAAAATCT
TTGATGAAATTCAAGTACTCTTAGGTTTATTATATTTAGCTGTTGTTGCTAATTAGAGAA
A
Length of 3' end seq. 711
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -