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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
SSM215
Library SS
(Link to library)
Clone ID SSM215
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U01989-1|Contig-U15785-1
Original site URL
Representative seq. ID SSM215P
(Link to Original site)
Representative DNA sequence 
>SSM215 (SSM215Q) /CSM/SS/SSM2-A/SSM215Q.Seq.d/
CCCACGCGTCCGGGAAACAATCATTCAATCATATCAAGAGATTATGAGTCAATTAAAATA
TAATTTAAAGGATTCATCATTAATGGATAAAAAAGATTCTGCCATTGTTCAACTACTTTA
TCAATTTTCGTCAATAACAAATAATTGTGTTGGTAGTAGTAGTGGTGGTAGTAGCAGTAG
TAATAATAGCGGCGCTGGAGGTAGTATTAATCCAACAGAGAATATATTGTTGGTAAAAGA
AACCATTGTAAATAAGTCATTAGAGATTCAAXXXXXXXXXXAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAACAAAAACCAAAACAAAACAAAAAAAACCGATCAAATTACTAATTAA
GTTAATTAATAATCATTTTGTAAATAATAAAATCTAAAAATAAATAAAAATTATTTTTTT
AAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
sequence update 1999. 1.17
Translated Amino Acid sequence 
PRVRETIIQSYQEIMSQLKYNLKDSSLMDKKDSAIVQLLYQFSSITNNCVGSSSGGSSSS
NNSGAGGSINPTENILLVKETIVNKSLEIQ---

---KKKKKKKKKKTKTKTKQKKPIKLLIKLINNHFVNNKI*k*ikiiflklkkkkkkkkk
kkkkkkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
ptrpgnnhsiisrdyesiki*fkgfiing*krfchcsttlsifvnnk*lcw***ww**q*
***rrwr*y*snreyivgkrnhck*virds---

---kkkkkkkkkkkqkpkqnkknrsny*ls*liiil*iiksknk*klff*n*kkkkkkkk
kkkkkkkk

Frame B:
PRVRETIIQSYQEIMSQLKYNLKDSSLMDKKDSAIVQLLYQFSSITNNCVGSSSGGSSSS
NNSGAGGSINPTENILLVKETIVNKSLEIQ---

---kkkkkkkkkknknqnktkktdqitn*vn**sfck**nlkinknyffkikkkkkkkkk
kkkkkkkk

Frame C:
hasgkqsfnhikrl*vn*nii*rihh*wikkilplfnyfinfrq*qiivlvvvvvvvavv
iiaalevvliqqriycw*kkpl*ish*rf---

---KKKKKKKKKKTKTKTKQKKPIKLLIKLINNHFVNNKI*k*ikiiflklkkkkkkkkk
kkkkkkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSM215 (SSM215Q) /CSM/SS/SSM2-A/SSM215Q.Seq.d/                        537   e-152
VHO509 (VHO509Q) /CSM/VH/VHO5-A/VHO509Q.Seq.d/                        513   e-145
VHM394 (VHM394Q) /CSM/VH/VHM3-D/VHM394Q.Seq.d/                        513   e-145
VHL450 (VHL450Q) /CSM/VH/VHL4-C/VHL450Q.Seq.d/                        513   e-145
VHH240 (VHH240Q) /CSM/VH/VHH2-B/VHH240Q.Seq.d/                        513   e-145
VHF711 (VHF711Q) /CSM/VH/VHF7-A/VHF711Q.Seq.d/                        513   e-145
VHF204 (VHF204Q) /CSM/VH/VHF2-A/VHF204Q.Seq.d/                        513   e-145
VHE376 (VHE376Q) /CSM/VH/VHE3-D/VHE376Q.Seq.d/                        513   e-145
VHC687 (VHC687Q) /CSM/VH/VHC6-D/VHC687Q.Seq.d/                        513   e-145
VHA442 (VHA442Q) /CSM/VH/VHA4-B/VHA442Q.Seq.d/                        513   e-145
own update 2004.12.25
Homology vs DNA 

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

CF199667|CF199667.1 EST1268 Tamarix androssowii leaf Tamarix androssowii cDNA, mRNA sequence.    58  1e-04  1
BM643209|BM643209.1 17000687311864 A.Gam.ad.cDNA1 Anopheles gambiae cDNA clone 19600449636549 5', mRNA sequence.    50  3e-04  2
BX537279|BX537279.5 Mouse DNA sequence from clone RP24-162H22 on chromosome X.    58  8e-04  3
AY170918|AY170918.1 Dictyostelium discoideum pats1 gene, partial cds.    48  8e-04  4
AC130025|AC130025.4 Rattus norvegicus clone CH230-44M13, WORKING DRAFT SEQUENCE, 2 unordered pieces.    54  0.002  1
AU176207|AU176207.1 Penaeus japonicus cDNA forward end of clone:PJV601.    54  0.002  1
BX323881|BX323881.6 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-274G13.    54  0.002  2
AC131146|AC131146.3 Rattus norvegicus clone CH230-62A9, WORKING DRAFT SEQUENCE, 1 ordered piece.    54  0.002  1
AU176208|AU176208.1 Penaeus japonicus cDNA reverse end of clone:PJV601.    54  0.002  1
AU175995|AU175995.1 Penaeus japonicus cDNA forward end of clone:PJV77.    54  0.002  1
dna update 2003. 8.12
Homology vs Protein 

 ***** No hits found ******

Lambda     K      H
   0.318    0.134    0.401

Gapped
Lambda     K      H
   0.267   0.0410    0.140

Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 3204285
Number of Hits to DB: 346,935,672
protein update 2009. 6.15
PSORT 

 psg: 0.66  gvh: 0.44  alm: 0.47  top: 0.53  tms: 0.00  mit: 0.30  mip: 0.02
 nuc: 0.66  erl: 0.00  erm: 0.60  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: 0.00  m_ : 1.00 

	 68.0 %: nuclear
	 20.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for SSM215 is nuc
5' end seq. ID SSM215F
5' end seq. 
>SSM215F.Seq
CCCACGCGTCCGGGAAACAATCATTCAATCATATCAAGAGATTATGAGTCAATTAAAATA
TAATTTAAAGGATTCATCATTAATGGATAAAAAAGATTCTGCCATTGTTCAACTACTTTA
TCAATTTTCGTCAATAACAAATAATTGTGTTGGTAGTAGTAGTGGTGGTAGTAGCAGTAG
TAATAATAGCGGCGCTGGAGGTAGTATTAATCCAACAGAGAATATATTGTTGGTAAAAGA
AACCATTGTAAATAAGTCATTAGAGATTCAA----------
Length of 5' end seq. 271
3' end seq. ID SSM215Z
3' end seq. 
>SSM215Z.Seq
----------AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAACAAAAACCAAAACAAAA
CAAAAAAAACCGATCAAATTACTAATTAAGTTAATTAATAATCATTTTGTAAATAATAAA
ATCTAAAAATAAATAAAAATTATTTTTTTAAAATTAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAA
Length of 3' end seq. 197
Connected seq. ID SSM215P
Connected seq. 
>SSM215P.Seq
CCCACGCGTCCGGGAAACAATCATTCAATCATATCAAGAGATTATGAGTCAATTAAAATA
TAATTTAAAGGATTCATCATTAATGGATAAAAAAGATTCTGCCATTGTTCAACTACTTTA
TCAATTTTCGTCAATAACAAATAATTGTGTTGGTAGTAGTAGTGGTGGTAGTAGCAGTAG
TAATAATAGCGGCGCTGGAGGTAGTATTAATCCAACAGAGAATATATTGTTGGTAAAAGA
AACCATTGTAAATAAGTCATTAGAGATTCAA----------AAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAACAAAAACCAAAACAAAACAAAAAAAACCGATCAAATTACTAATTAA
GTTAATTAATAATCATTTTGTAAATAATAAAATCTAAAAATAAATAAAAATTATTTTTTT
AAAATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
Length of connected seq. 468
Full length Seq ID -
Full length Seq. -
Length of full length seq. -