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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
SSH571
Library SS
(Link to library)
Clone ID SSH571
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13239-1
Original site URL
Representative seq. ID SSH571P
(Link to Original site)
Representative DNA sequence 
>SSH571 (SSH571Q) /CSM/SS/SSH5-C/SSH571Q.Seq.d/
CACAAAACAACAAAAATTAAAATAATAATTAATTAAACAACAATAACATCATATTCACAC
TCACACACAAACACAAACTACTTAAAGAAGGGATTGTTTTTTTATTATTATTATTATTTT
ATTAATAATACTAATAATTTTAAATTAAAAAAAAAAAAAAAAAAAAAATTTAAAAATTTA
AAAATTTTAGAAGTTAATTTGTTAAATTAGTAAAAAAAAAAAAAATAAXXXXXXXXXXTC
ATATTCACACTCACACACAAACNCAAACTACTTAAAGAAGGGATTGTTTTTTTATTATTC
TTATTATTTTATTAATAATNCTAATAATTTTAAATTAAAAAAAAAAAAAAAAAAAAAATT
TAAAAATTTAAAAATTTTNGAAGTTAATTTGTTAAATTAGTAAAAAAAAAAAAAAAAAAA
AAACAAC
sequence update 1999. 1.18
Translated Amino Acid sequence 
qnnkn*nnn*lnnnniiftlthkhkllkegivflllllfy**y**f*ikkkkkkki*kfk
nfrs*FVKLVKKKKI---

---SYSHSHTNXNYLKKGLFFYYSYYFINNXNNFKLKKKKKKKFKNLKIXEVNLLN**kk
kkkknn
Translated Amino Acid sequence (All Frames) 
Frame A:
hkttkikiiin*ttitsyshshtntnylkkglffyyyyyfinntnnfklkkkkkkkfknl
kilevnlln**kkkk*---

---SYSHSHTNXNYLKKGLFFYYSYYFINNXNNFKLKKKKKKKFKNLKIXEVNLLN**kk
kkkknn

Frame B:
tkqqklk**likqq*hhihthtqtqtt*rrdcffiiiiilliiliiln*kkkkkknlki*
kf*klic*iskkkkn---

---hihthtqtqtt*rrdcffiiliillixliiln*kkkkkknlki*kfxklic*iskkk
kkkkt

Frame C:
qnnkn*nnn*lnnnniiftlthkhkllkegivflllllfy**y**f*ikkkkkkki*kfk
nfrs*FVKLVKKKKI---

---iftlthkxkllkegivfllfllfy**x**f*ikkkkkkki*kfknfxs*fvklvkkk
kkkkq
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSH571 (SSH571Q) /CSM/SS/SSH5-C/SSH571Q.Seq.d/                        141   1e-32
SSJ458 (SSJ458Q) /CSM/SS/SSJ4-C/SSJ458Q.Seq.d/                        133   2e-30
SHD278 (SHD278Q) /CSM/SH/SHD2-D/SHD278Q.Seq.d/                        133   2e-30
SSK655 (SSK655Q) /CSM/SS/SSK6-C/SSK655Q.Seq.d/                         40   0.027
SSD454 (SSD454Q) /CSM/SS/SSD4-C/SSD454Q.Seq.d/                         40   0.027
VFJ121 (VFJ121Q) /CSM/VF/VFJ1-A/VFJ121Q.Seq.d/                         38   0.11
SHL229 (SHL229Q) /CSM/SH/SHL2-B/SHL229Q.Seq.d/                         38   0.11
SHJ731 (SHJ731Q) /CSM/SH/SHJ7-B/SHJ731Q.Seq.d/                         38   0.11
SHJ202 (SHJ202Q) /CSM/SH/SHJ2-A/SHJ202Q.Seq.d/                         38   0.11
SHI830 (SHI830Q) /CSM/SH/SHI8-B/SHI830Q.Seq.d/                         38   0.11
own update 2004.12.25
Homology vs DNA 

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

AB063521|AB063521.2 Wigglesworthia brevipalpis DNA, complete genome, section 1/2.    38  5e-06  7
AX599046|AX599046.1 Sequence 386 from Patent WO02077272.          42  2e-05  6
AL606702|AL606702.7 Zebrafish DNA sequence from clone BUSM1-172K9 in linkage group 15  Contains a novel transposase pseudogene and a putative novel gene.    36  2e-04  6
AC135092|AC135092.2 Rattus norvegicus clone CH230-177P2, WORKING DRAFT SEQUENCE, 2 unordered pieces.    46  3e-04  3
AC123187|AC123187.4 Rattus norvegicus clone CH230-30A13, *** SEQUENCING IN PROGRESS ***, 9 unordered pieces.    46  4e-04  3
AC141817|AC141817.1 Apis mellifera clone CH224-61C1, WORKING DRAFT SEQUENCE, 35 unordered pieces.    44  7e-04  3
BB630959|BB630959.1 Mus musculus 16 days neonate thymus cDNA, RIKEN full-length enriched library, clone:A130041B03, 5' end partial sequence.    40  0.001  2
AC115685|AC115685.1 Dictyostelium discoideum chromosome 2 map 4718821-4752388 strain AX4, complete sequence.    34  0.002  6
AZ853084|AZ853084.1 2M0156O03F Mouse 10kb plasmid UUGC1M library Mus musculus genomic clone UUGC2M0156O03 F, DNA sequence.    40  0.004  2
AC087203|AC087203.12 Homo sapiens chromosome 8, clone RP11-351I21, complete sequence.    44  0.004  3
dna update 2003. 7.28
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: 3159261
Number of Hits to DB: 94,242,057
protein update 2009. 6.12
PSORT 

 psg: 0.75  gvh: 0.15  alm: 0.59  top: 0.53  tms: 0.00  mit: 0.38  mip: 0.00
 nuc: 0.32  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 

	 68.0 %: nuclear
	 16.0 %: cytoplasmic
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane

>> prediction for SSH571 is nuc
5' end seq. ID SSH571F
5' end seq. 
>SSH571F.Seq
CACAAAACAACAAAAATTAAAATAATAATTAATTAAACAACAATAACATCATATTCACAC
TCACACACAAACACAAACTACTTAAAGAAGGGATTGTTTTTTTATTATTATTATTATTTT
ATTAATAATACTAATAATTTTAAATTAAAAAAAAAAAAAAAAAAAAAATTTAAAAATTTA
AAAATTTTAGAAGTTAATTTGTTAAATTAGTAAAAAAAAAAAAAATAA----------
Length of 5' end seq. 228
3' end seq. ID SSH571Z
3' end seq. 
>SSH571Z.Seq
----------TCATATTCACACTCACACACAAACNCAAACTACTTAAAGAAGGGATTGTT
TTTTTATTATTCTTATTATTTTATTAATAATNCTAATAATTTTAAATTAAAAAAAAAAAA
AAAAAAAAAATTTAAAAATTTAAAAATTTTNGAAGTTAATTTGTTAAATTAGTAAAAAAA
AAAAAAAAAAAAAAACAAC
Length of 3' end seq. 189
Connected seq. ID SSH571P
Connected seq. 
>SSH571P.Seq
CACAAAACAACAAAAATTAAAATAATAATTAATTAAACAACAATAACATCATATTCACAC
TCACACACAAACACAAACTACTTAAAGAAGGGATTGTTTTTTTATTATTATTATTATTTT
ATTAATAATACTAATAATTTTAAATTAAAAAAAAAAAAAAAAAAAAAATTTAAAAATTTA
AAAATTTTAGAAGTTAATTTGTTAAATTAGTAAAAAAAAAAAAAATAA----------TC
ATATTCACACTCACACACAAACNCAAACTACTTAAAGAAGGGATTGTTTTTTTATTATTC
TTATTATTTTATTAATAATNCTAATAATTTTAAATTAAAAAAAAAAAAAAAAAAAAAATT
TAAAAATTTAAAAATTTTNGAAGTTAATTTGTTAAATTAGTAAAAAAAAAAAAAAAAAAA
AAACAAC
Length of connected seq. 417
Full length Seq ID -
Full length Seq. -
Length of full length seq. -