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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
SSH306
Library SS
(Link to library)
Clone ID SSH306
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16505-1
Original site URL
Representative seq. ID SSH306P
(Link to Original site)
Representative DNA sequence 
>SSH306 (SSH306Q) /CSM/SS/SSH3-A/SSH306Q.Seq.d/
GCTAATAGTAATAAAAAAAAAAAAAAACATGAAAATTACATTATTCTCAAGTAAACCATA
TTGGGTAAAATGGTTCAATGAATTAAATAAATTTTCATATGAAATTAATTATGTTACCAG
TGCATGTGATATTAAATCAGTTAATGAAGCAAAAGGATCAGAAGCAGTTTGTTGTTTTGT
AAATGATGATCTTTCAAAAGAAGTTATTGAAACATTACATTCAAATGGTACTAAGGTTAT
TTTAATGAGATGTGCAGGTTTTAATAAGGTCGATTTGGATACTGCCAATAAATTAGGAAT
CCCAGTATTAAGAGTACCAGCCTATTCACCAAATGCAGTATCAGAGTATGCACTTTCATT
AATTATGGCATTGAATAGAAAGACCCATXXXXXXXXXXAAGCAGTCACTGATATCGGTAT
CGAGTACGTAAGGACTTTAGACGAAATTTGGAAACAATGTGATGTCATCTCATTACACAC
TCCATTGAATTCTCAAACTAAATATATGGTAAACTCTGAATCCATCGAAAAGATGAGAGA
TGGTGTTATGATTATCAACGTTTCAAGAGGTGCTTTAGTTAATGCTTCTGATGCAATTGT
TGGTTTAAAATCTGGTAAAATCAGTTCACTTGGTATGGATGTCTATGAAAATGAAACCGA
TTACTTTTATCAAGATCACAATGGTTCAATCATTAAAGATGATAATCTCTCTTTATTAAT
CTCTTATCCAAATGTTATGATCACTTCCCATCAAGCATGGTACACTAAAGAAGCCATTTC
TTGTATCTGTGGTACTTCACTTCAAAATTTCGTTGATTTTAGATCAAATCAAATTAAAAA
ATCAAATTTAGTTAATAATCCAATTTCATCACAACCAACACAATAAATTAAAAAAAAAAA
AAATAATTAAAAATAAAAAAAAATAAAAAAATTAAATCTAAA
sequence update 1999. 1.21
Translated Amino Acid sequence 
LIVIKKKKNMKITLFSSKPYWVKWFNELNKFSYEINYVTSACDIKSVNEAKGSEAVCCFV
NDDLSKEVIETLHSNGTKVILMRCAGFNKVDLDTANKLGIPVLRVPAYSPNAVSEYALSL
IMALNRKTH---

---AVTDIGIEYVRTLDEIWKQCDVISLHTPLNSQTKYMVNSESIEKMRDGVMIINVSRG
ALVNASDAIVGLKSGKISSLGMDVYENETDYFYQDHNGSIIKDDNLSLLISYPNVMITSH
QAWYTKEAISCICGTSLQNFVDFRSNQIKKSNLVNNPISSQPTQ*ikkkknn*k*kkikk
lnl
Translated Amino Acid sequence (All Frames) 
Frame A:
ansnkkkkkhenyiilk*tilgkmvq*ik*ifi*n*lcyqcm*y*is**skrirssllfc
k**sfkrsy*nitfkwy*gyfnemcrf**grfgycq*irnpsikstslftkcsirvctfi
nygie*kdp---

---kqslisvsst*gl*tkfgnnvmsshytlh*ilklniw*tlnpskr*emvl*lstfqe
vl*lmllmqllv*nlvksvhlvwmsmkmkpitfikitmvqslkmiisly*sliqml*slp
ikhgtlkkpflvsvvlhfkislildqiklknqi*liiqfhhnqhnklkkkkiiknkkk*k
n*i*

Frame B:
LIVIKKKKNMKITLFSSKPYWVKWFNELNKFSYEINYVTSACDIKSVNEAKGSEAVCCFV
NDDLSKEVIETLHSNGTKVILMRCAGFNKVDLDTANKLGIPVLRVPAYSPNAVSEYALSL
IMALNRKTH---

---ssh*yryrvrkdfrrnletm*chlithsiefsn*iygkl*ihrkderwcydyqrfkr
cfs*cf*cncwfkiw*nqftwygcl*k*nrlllsrsqwfnh*r**slfinllskcydhfp
ssmvh*rshflylwyftskfr*f*iksn*kikfs**snfittntin*kkkk*lkikknkk
iksk

Frame C:
****kkkkt*klhysqvnhig*ngsmn*infhmklimlpvhvilnqlmkqkdqkqfvvl*
mmifqkkllkhyiqmvlrlf**dvqvlirsiwilpin*esqy*eyqpihqmqyqsmhfh*
lwh*ierp---

---AVTDIGIEYVRTLDEIWKQCDVISLHTPLNSQTKYMVNSESIEKMRDGVMIINVSRG
ALVNASDAIVGLKSGKISSLGMDVYENETDYFYQDHNGSIIKDDNLSLLISYPNVMITSH
QAWYTKEAISCICGTSLQNFVDFRSNQIKKSNLVNNPISSQPTQ*ikkkknn*k*kkikk
lnl
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSH306 (SSH306Q) /CSM/SS/SSH3-A/SSH306Q.Seq.d/                       1649   0.0
VSC493 (VSC493Q) /CSM/VS/VSC4-D/VSC493Q.Seq.d/                        965   0.0
VSC428 (VSC428Q) /CSM/VS/VSC4-B/VSC428Q.Seq.d/                        965   0.0
SSK267 (SSK267Q) /CSM/SS/SSK2-C/SSK267Q.Seq.d/                        965   0.0
VSD790 (VSD790Q) /CSM/VS/VSD7-D/VSD790Q.Seq.d/                        948   0.0
VSB103 (VSB103Q) /CSM/VS/VSB1-A/VSB103Q.Seq.d/                        946   0.0
VSE360 (VSE360Q) /CSM/VS/VSE3-C/VSE360Q.Seq.d/                        942   0.0
VFD404 (VFD404Q) /CSM/VF/VFD4-A/VFD404Q.Seq.d/                        942   0.0
VFN213 (VFN213Q) /CSM/VF/VFN2-A/VFN213Q.Seq.d/                        936   0.0
VFN468 (VFN468Q) /CSM/VF/VFN4-C/VFN468Q.Seq.d/                        934   0.0
own update 2004.12.25
Homology vs DNA 

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

AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.    38   0.001  15
CK667430|CK667430.1 ZF301-P00003-DEPE-F_L17 GISZF301 Danio rerio cDNA clone IMAGE:7178851 5', mRNA sequence.    44   0.004  2
AC115598|AC115598.2 Dictyostelium discoideum chromosome 2 map 581427-735498 strain AX4, complete sequence.    30   0.005  13
AC116960|AC116960.2 Dictyostelium discoideum chromosome 2 map complement(1004496-821614) strain AX4, complete sequence.    32   0.007  13
AF325828|AF325828.1 Bacillus pumilus strain HB030 unknown gene.    36   0.008  4
AP003189|AP003189.2 Clostridium perfringens str. 13 DNA, complete genome, section 5/10.    32   0.011  15
BX572092|BX572092.1 Prochlorococcus marinus MED4 complete genome; segment 3/5.    34   0.012  11
AC117176|AC117176.2 Dictyostelium discoideum chromosome 2 map 5018074-5200947 strain AX4, complete sequence.    34   0.053  11
AC115577|AC115577.2 Dictyostelium discoideum chromosome 2 map 4657875-4914984 strain AX4, complete sequence.    34   0.085  14
AC116957|AC116957.2 Dictyostelium discoideum chromosome 2 map 1685067-2090751 strain AX4, complete sequence.    34   0.10   14
dna update 2004. 2.14
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54UF7) RecName: Full=Putative D-lactate dehydrogenase;        ...   494   e-138
CP001139_1077(CP001139|pid:none) Vibrio fischeri MJ11 chromosome...   229   8e-59
CR378666_268(CR378666|pid:none) Photobacterium profundum SS9; se...   229   8e-59
CP000109_1606(CP000109|pid:none) Thiomicrospira crunogena XCL-2,...   229   1e-58
CP000020_1052(CP000020|pid:none) Vibrio fischeri ES114 chromosom...   227   5e-58
CP000514_3813(CP000514|pid:none) Marinobacter aquaeolei VT8, com...   221   2e-56
CP000507_608(CP000507|pid:none) Shewanella amazonensis SB2B, com...   219   8e-56
CP000450_1261(CP000450|pid:none) Nitrosomonas eutropha C91, comp...   218   2e-55
BA000037_2174(BA000037|pid:none) Vibrio vulnificus YJ016 DNA, ch...   218   2e-55
CP000606_786(CP000606|pid:none) Shewanella loihica PV-4, complet...   218   3e-55
protein update 2009. 6.12
PSORT 

 psg: 0.79  gvh: 0.35  alm: 0.43  top: 0.53  tms: 0.00  mit: 0.27  mip: 0.00
 nuc: 0.04  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: 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 

	 52.0 %: cytoplasmic
	 24.0 %: nuclear
	  8.0 %: mitochondrial
	  8.0 %: plasma membrane
	  4.0 %: vesicles of secretory system
	  4.0 %: peroxisomal

>> prediction for SSH306 is cyt
5' end seq. ID SSH306F
5' end seq. 
>SSH306F.Seq
GCTAATAGTAATAAAAAAAAAAAAAAACATGAAAATTACATTATTCTCAAGTAAACCATA
TTGGGTAAAATGGTTCAATGAATTAAATAAATTTTCATATGAAATTAATTATGTTACCAG
TGCATGTGATATTAAATCAGTTAATGAAGCAAAAGGATCAGAAGCAGTTTGTTGTTTTGT
AAATGATGATCTTTCAAAAGAAGTTATTGAAACATTACATTCAAATGGTACTAAGGTTAT
TTTAATGAGATGTGCAGGTTTTAATAAGGTCGATTTGGATACTGCCAATAAATTAGGAAT
CCCAGTATTAAGAGTACCAGCCTATTCACCAAATGCAGTATCAGAGTATGCACTTTCATT
AATTATGGCATTGAATAGAAAGACCCAT----------
Length of 5' end seq. 388
3' end seq. ID SSH306Z
3' end seq. 
>SSH306Z.Seq
----------AAGCAGTCACTGATATCGGTATCGAGTACGTAAGGACTTTAGACGAAATT
TGGAAACAATGTGATGTCATCTCATTACACACTCCATTGAATTCTCAAACTAAATATATG
GTAAACTCTGAATCCATCGAAAAGATGAGAGATGGTGTTATGATTATCAACGTTTCAAGA
GGTGCTTTAGTTAATGCTTCTGATGCAATTGTTGGTTTAAAATCTGGTAAAATCAGTTCA
CTTGGTATGGATGTCTATGAAAATGAAACCGATTACTTTTATCAAGATCACAATGGTTCA
ATCATTAAAGATGATAATCTCTCTTTATTAATCTCTTATCCAAATGTTATGATCACTTCC
CATCAAGCATGGTACACTAAAGAAGCCATTTCTTGTATCTGTGGTACTTCACTTCAAAAT
TTCGTTGATTTTAGATCAAATCAAATTAAAAAATCAAATTTAGTTAATAATCCAATTTCA
TCACAACCAACACAATAAATTAAAAAAAAAAAAAATAATTAAAAATAAAAAAAAATAAAA
AAATTAAATCTAAA
Length of 3' end seq. 544
Connected seq. ID SSH306P
Connected seq. 
>SSH306P.Seq
GCTAATAGTAATAAAAAAAAAAAAAAACATGAAAATTACATTATTCTCAAGTAAACCATA
TTGGGTAAAATGGTTCAATGAATTAAATAAATTTTCATATGAAATTAATTATGTTACCAG
TGCATGTGATATTAAATCAGTTAATGAAGCAAAAGGATCAGAAGCAGTTTGTTGTTTTGT
AAATGATGATCTTTCAAAAGAAGTTATTGAAACATTACATTCAAATGGTACTAAGGTTAT
TTTAATGAGATGTGCAGGTTTTAATAAGGTCGATTTGGATACTGCCAATAAATTAGGAAT
CCCAGTATTAAGAGTACCAGCCTATTCACCAAATGCAGTATCAGAGTATGCACTTTCATT
AATTATGGCATTGAATAGAAAGACCCAT----------AAGCAGTCACTGATATCGGTAT
CGAGTACGTAAGGACTTTAGACGAAATTTGGAAACAATGTGATGTCATCTCATTACACAC
TCCATTGAATTCTCAAACTAAATATATGGTAAACTCTGAATCCATCGAAAAGATGAGAGA
TGGTGTTATGATTATCAACGTTTCAAGAGGTGCTTTAGTTAATGCTTCTGATGCAATTGT
TGGTTTAAAATCTGGTAAAATCAGTTCACTTGGTATGGATGTCTATGAAAATGAAACCGA
TTACTTTTATCAAGATCACAATGGTTCAATCATTAAAGATGATAATCTCTCTTTATTAAT
CTCTTATCCAAATGTTATGATCACTTCCCATCAAGCATGGTACACTAAAGAAGCCATTTC
TTGTATCTGTGGTACTTCACTTCAAAATTTCGTTGATTTTAGATCAAATCAAATTAAAAA
ATCAAATTTAGTTAATAATCCAATTTCATCACAACCAACACAATAAATTAAAAAAAAAAA
AAATAATTAAAAATAAAAAAAAATAAAAAAATTAAATCTAAA
Length of connected seq. 932
Full length Seq ID -
Full length Seq. -
Length of full length seq. -