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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
SSB424
Library SS
(Link to library)
Clone ID SSB424
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig -
Original site URL
Representative seq. ID SSB424F
(Link to Original site)
Representative DNA sequence 
>SSB424 (SSB424Q) /CSM/SS/SSB4-A/SSB424Q.Seq.d/
GTAAGATCATTAAATTACAAATCTGGGATACTGCAGGACAAGAAAGATTCAGAACAATTA
CATCATCATATTATCGTGGTGCACATGGTATCATCGTTGTGTATGATGTCACTGATCATG
TCAGTTTCAACAATGTCAAACAATGGATGCAAGAAATTCAAAGATATGXXXXXXXXXX
sequence update 1998. 9. 9
Translated Amino Acid sequence 
VRSLNYKSGILQDKKDSEQLHHHIIVVHMVSSLCMMSLIMSVSTMSNNGCKKFKD---
Translated Amino Acid sequence (All Frames) 
Frame A:
VRSLNYKSGILQDKKDSEQLHHHIIVVHMVSSLCMMSLIMSVSTMSNNGCKKFKD---


Frame B:
*dh*itnlgycrtrkiqnnyiiilswctwyhrcv*ch*scqfqqcqtmdarnski---


Frame C:
kiiklqiwdtagqerfrtitssyyrgahgiivvydvtdhvsfnnvkqwmqeiqry---
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFC510 (VFC510Q) /CSM/VF/VFC5-A/VFC510Q.Seq.d/                        333   5e-91
SSM886 (SSM886Q) /CSM/SS/SSM8-D/SSM886Q.Seq.d/                        333   5e-91
SSM603 (SSM603Q) /CSM/SS/SSM6-A/SSM603Q.Seq.d/                        333   5e-91
SSL855 (SSL855Q) /CSM/SS/SSL8-C/SSL855Q.Seq.d/                        333   5e-91
SSL682 (SSL682Q) /CSM/SS/SSL6-D/SSL682Q.Seq.d/                        333   5e-91
SSI475 (SSI475Q) /CSM/SS/SSI4-D/SSI475Q.Seq.d/                        333   5e-91
SSH594 (SSH594Q) /CSM/SS/SSH5-D/SSH594Q.Seq.d/                        333   5e-91
SSE547 (SSE547Q) /CSM/SS/SSE5-B/SSE547Q.Seq.d/                        333   5e-91
SSB424 (SSB424Q) /CSM/SS/SSB4-A/SSB424Q.Seq.d/                        333   5e-91
SSB423 (SSB423Q) /CSM/SS/SSB4-A/SSB423Q.Seq.d/                        333   5e-91
own update 2001. 6.15
Homology vs DNA 

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

L21010|L21010.1 Dictyostelium discoideum Rab1B mRNA, 3' end of cds.   254  4e-80  2
L21009|L21009.1 Dictyostelium discoideum Rab1A mRNA, complete cds.   168  1e-38  1
AL440480|AL440480.1 T3 end of clone BD0AA012F12 of library BD0AA from strain CBS 94 of  Candida tropicalis.   107  5e-26  2
BQ655324|BQ655324.1 NXRV092_H08_F NXRV (Nsf Xylem Root wood Vertical) Pinus taeda cDNA clone NXRV092_H08 5' similar to Arabidopsis thaliana sequence At4g17530 ras-related small GTP-binding protein RAB1c see http://mips.gsf.de/proj/thal/db/index.html, mRNA sequence.    68  9e-17  2
AU299537|AU299537.1 Cryptomeria japonica mRNA, clone: CM1061, 5' end, expressed in male cone.    68  9e-17  2
CB239752|CB239752.1 RSH16C01 two-month-old roots from clone 'Beaupre' grown for 19 days under restricted irrigation Populus balsamifera subsp. trichocarpa x Populus deltoides cDNA 5', mRNA sequence.    64  5e-16  3
CB240449|CB240449.1 PopSC00433 Poplar SC cDNA library Populus alba x Populus glandulosa cDNA clone PopSC00433, mRNA sequence.    64  1e-15  3
BU885863|BU885863.1 R037C07 Populus root cDNA library Populus tremula x Populus tremuloides cDNA 5 prime, mRNA sequence.    64  2e-15  3
M34457|M34457.1 D.discoideum GTP-binding protein (SAS2) gene, complete cds.    84  2e-15  2
BU828462|BU828462.1 K023P51P Populus apical shoot cDNA library Populus tremula x Populus tremuloides cDNA 5 prime, mRNA sequence.    64  2e-15  3
dna update 2003. 7.19
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P34140) RecName: Full=Ras-related protein Rab-1B;                    117   1e-25
L21010_1(L21010|pid:none) Dictyostelium discoideum Rab1B mRNA, 3...   110   1e-23
AL606522_3(AL606522|pid:none) Mouse DNA sequence from clone RP23...   107   2e-22
D38625(D38625)GTP-binding protein o-rab1 - electric ray (Discopy...   107   2e-22
DQ214474_1(DQ214474|pid:none) Taeniopygia guttata clone 0063P003...   107   2e-22
J02998_1(J02998|pid:none) Rat ras-related protein mRNA, clone NT...   107   2e-22
(P22125) RecName: Full=Ras-related protein ORAB-1;  &M38393_1(M3...   107   2e-22
BT057068_1(BT057068|pid:none) Salmo salar clone ssal-eve-570-039...   107   2e-22
EF103367_1(EF103367|pid:none) Haliotis discus discus Ras-related...   107   2e-22
BT059700_1(BT059700|pid:none) Salmo salar clone ssal-rgf-002-342...   107   2e-22
protein update 2009. 6. 8
PSORT 

 psg: 0.51  gvh: 0.52  alm: 0.25  top: 0.53  tms: 0.07  mit: 0.27  mip: 0.02
 nuc: 0.00  erl: 0.00  erm: 1.20  pox: 0.00  px2: 0.00  vac: 0.00  rnp: 0.00
 act: 0.00  caa: 0.00  yqr: 1.00  tyr: 0.21  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 : 1.00  mNt: 0.00
 m3a: 0.00  m3b: 0.00  m_ : 0.00 

	 36.0 %: mitochondrial
	 24.0 %: nuclear
	 16.0 %: cytoplasmic
	 12.0 %: Golgi
	  8.0 %: endoplasmic reticulum
	  4.0 %: vacuolar

>> prediction for SSB424 is mit
5' end seq. ID SSB424F
5' end seq. 
>SSB424F.Seq
GTAAGATCATTAAATTACAAATCTGGGATACTGCAGGACAAGAAAGATTCAGAACAATTA
CATCATCATATTATCGTGGTGCACATGGTATCATCGTTGTGTATGATGTCACTGATCATG
TCAGTTTCAACAATGTCAAACAATGGATGCAAGAAATTCAAAGATATG----------
Length of 5' end seq. 168
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. -