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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
SSM340
Library SS
(Link to library)
Clone ID SSM340
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16296-1
Original site URL
Representative seq. ID SSM340P
(Link to Original site)
Representative DNA sequence 
>SSM340 (SSM340Q) /CSM/SS/SSM3-B/SSM340Q.Seq.d/
ATTTGTTTTAGCTGTTTTTACTGTTTTTGTTTCAAGTAGAGGAATTCCATTAGAACAAAG
TCAATTCCTTGAATTTCAAGATAAATTCAATAAAAAATATTCACATGAAGAATATTTGGA
AAGATTTGAAATTTTTAAAAGCAATTTAGGAAAAATTGAAGAATTAAATCTAATAGCCAT
TAATCACAAAGCTGATACTAAATTTGGTGTAAACAAGTTTGCAGATCTTTCCAGTGACGA
ATTTAAAAATTATTATTTAAATAATAAGGAAGCAATATTCACTGATGACCTTCCAGTTGC
TGATTAXXXXXXXXXXAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAATTTAAA
AATAAATAAAATTTTTTATTAAATCTAAAAAAAAAAAAAAAAAAAAAAGAAATAGTGTTT
GTATAAAAAAAAAAA
sequence update 1999. 1.19
Translated Amino Acid sequence 
FVLAVFTVFVSSRGIPLEQSQFLEFQDKFNKKYSHEEYLERFEIFKSNLGKIEELNLIAI
NHKADTKFGVNKFADLSSDEFKNYYLNNKEAIFTDDLPVAD---

---KKKKKKKKKKKKNLKINKIFY*i*kkkkkkkk*clykkk
Translated Amino Acid sequence (All Frames) 
Frame A:
icfscfycfcfk*rnsirtksip*isr*iq*kift*rifgki*nf*kqfrkn*riksnsh
*sqs*y*iwckqvcrsfq*ri*kllfk**gsnih**pssc*l---

---KKKKKKKKKKKKNLKINKIFY*i*kkkkkkkk*clykkk

Frame B:
FVLAVFTVFVSSRGIPLEQSQFLEFQDKFNKKYSHEEYLERFEIFKSNLGKIEELNLIAI
NHKADTKFGVNKFADLSSDEFKNYYLNNKEAIFTDDLPVAD---

---kkkkkkkkkkkri*k*ikffikskkkkkkkrnsvcikkk

Frame C:
lf*lfllflfqveefh*nkvnslnfkinsiknihmkniwkdlkflkai*eklkn*i**pl
itklilnlv*tslqifpvtnlkiii*iirkqyslmtfqlli---

---kkkkkkkkkkkefknk*nfllnlkkkkkkkeivfv*kkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VFH196 (VFH196Q) /CSM/VF/VFH1-D/VFH196Q.Seq.d/                        543   e-154
SSM340 (SSM340Q) /CSM/SS/SSM3-B/SSM340Q.Seq.d/                        543   e-154
SSA233 (SSA233Q) /CSM/SS/SSA2-B/SSA233Q.Seq.d/                        543   e-154
SFA691 (SFA691Q) /CSM/SF/SFA6-D/SFA691Q.Seq.d/                        543   e-154
AFE263 (AFE263Q) /CSM/AF/AFE2-C/AFE263Q.Seq.d/                        541   e-153
SFL285 (SFL285Q) /CSM/SF/SFL2-D/SFL285Q.Seq.d/                        537   e-152
AHL332 (AHL332Q) /CSM/AH/AHL3-B/AHL332Q.Seq.d/                        537   e-152
CHC764 (CHC764Q) /CSM/CH/CHC7-C/CHC764Q.Seq.d/                        531   e-150
VFF582 (VFF582Q) /CSM/VF/VFF5-D/VFF582Q.Seq.d/                        521   e-147
VFC443 (VFC443Q) /CSM/VF/VFC4-B/VFC443Q.Seq.d/                        521   e-147
own update 2004.12.25
Homology vs DNA 

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

X02407|X02407.1 D.discoideum mRNA for cysteine proteinase 1.     505  e-155  3
AJ510157|AJ510157.1 Cloning vector pDXA-3hygro.                   70  5e-08  2
AJ510164|AJ510164.1 Cloning vector pDXA-3strep.                   70  6e-08  2
X85119|X85119.1 Artificial sequences cloning vector DNA pDXA-3H.    70  6e-08  2
X85122|X85122.1 Artificial sequences cloning vector DNA pDXA-HY.    70  6e-08  2
AJ510165|AJ510165.1 Cloning vector pDXA-3FLAG.                    70  6e-08  2
X85118|X85118.1 Artificial sequences cloning vector DNA pDXA-3C.    70  6e-08  2
X85123|X85123.1 Artificial sequences cloning vector DNA pDXA-HC.    70  6e-08  2
AF269236|AF269236.1 Cloning vector pDXA-FLAG, complete sequence.    70  6e-08  2
X85120|X85120.1 Artificial sequences cloning vector DNA pDXD-3H.    70  6e-08  2
dna update 2003. 8.12
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P04988) RecName: Full=Cysteine proteinase 1;          EC=3.4.22...   199   2e-50
AY063763_1(AY063763|pid:none) Plasmodium berghei berghepain-2 mR...    54   2e-06
AJ583510_1(AJ583510|pid:none) Diabrotica virgifera virgifera par...    54   2e-06
(P04989) RecName: Full=Cysteine proteinase 2;          EC=3.4.22...    53   3e-06
EU597229_1(EU597229|pid:none) Paralichthys olivaceus cathepsin F...    53   4e-06
AY821800_1(AY821800|pid:none) Opisthorchis viverrini cysteine pr...    52   5e-06
AY662993_1(AY662993|pid:none) Petunia x hybrida cysteine protein...    52   5e-06
(Q3T0I2) RecName: Full=Cathepsin H;          EC=3.4.22.16; Conta...    52   6e-06
AK059528_1(AK059528|pid:none) Oryza sativa Japonica Group cDNA c...    52   6e-06
AP008207_3801(AP008207|pid:none) Oryza sativa (japonica cultivar...    52   6e-06
protein update 2009. 6.15
PSORT 

 psg: 0.97  gvh: 0.64  alm: 0.32  top: 0.33  tms: 0.00  mit: 0.29  mip: 0.03
 nuc: 0.52  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: 0.00
 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 

	 68.0 %: nuclear
	  8.0 %: plasma membrane
	  8.0 %: extracellular, including cell wall
	  4.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: vacuolar

>> prediction for SSM340 is nuc
5' end seq. ID SSM340F
5' end seq. 
>SSM340F.Seq
ATTTGTTTTAGCTGTTTTTACTGTTTTTGTTTCAAGTAGAGGAATTCCATTAGAACAAAG
TCAATTCCTTGAATTTCAAGATAAATTCAATAAAAAATATTCACATGAAGAATATTTGGA
AAGATTTGAAATTTTTAAAAGCAATTTAGGAAAAATTGAAGAATTAAATCTAATAGCCAT
TAATCACAAAGCTGATACTAAATTTGGTGTAAACAAGTTTGCAGATCTTTCCAGTGACGA
ATTTAAAAATTATTATTTAAATAATAAGGAAGCAATATTCACTGATGACCTTCCAGTTGC
TGATTA----------
Length of 5' end seq. 306
3' end seq. ID SSM340Z
3' end seq. 
>SSM340Z.Seq
----------AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAATTTAAAAATAAA
TAAAATTTTTTATTAAATCTAAAAAAAAAAAAAAAAAAAAAAGAAATAGTGTTTGTATAA
AAAAAAAAA
Length of 3' end seq. 119
Connected seq. ID SSM340P
Connected seq. 
>SSM340P.Seq
ATTTGTTTTAGCTGTTTTTACTGTTTTTGTTTCAAGTAGAGGAATTCCATTAGAACAAAG
TCAATTCCTTGAATTTCAAGATAAATTCAATAAAAAATATTCACATGAAGAATATTTGGA
AAGATTTGAAATTTTTAAAAGCAATTTAGGAAAAATTGAAGAATTAAATCTAATAGCCAT
TAATCACAAAGCTGATACTAAATTTGGTGTAAACAAGTTTGCAGATCTTTCCAGTGACGA
ATTTAAAAATTATTATTTAAATAATAAGGAAGCAATATTCACTGATGACCTTCCAGTTGC
TGATTA----------AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAGAATTTAAA
AATAAATAAAATTTTTTATTAAATCTAAAAAAAAAAAAAAAAAAAAAAGAAATAGTGTTT
GTATAAAAAAAAAAA
Length of connected seq. 425
Full length Seq ID -
Full length Seq. -
Length of full length seq. -