NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
SSL143
Library SS
(Link to library)
Clone ID SSL143
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U07980-1
Original site URL
Representative seq. ID SSL143Z
(Link to Original site)
Representative DNA sequence 
>SSL143 (SSL143Q) /CSM/SS/SSL1-B/SSL143Q.Seq.d/
XXXXXXXXXXTTAATGGTTAGGTACCATTATATTAATGTTAGCAGGTAGTCTTGCTATGA
TTATCTATAATAAACCTTTACAATTACAAGGATTAGGTACAAAAACTATAGTGGGACAGG
TGTGGTTTAATGCTGTATTAGCTTTACATTCAATTTATTTAATTGGTGTAGGTTTCGAAT
TAATTTCAAGAGCATATCTTATGATGGTTGGTTCAACTTGTTCAGAACAAAGAAGAGGAT
TTTTATGTTGTTTTGTATATTCAATGAGTATTTGGTGGAAATTAATGATGATTTTAGGTG
TTGTTTCATCTATTGTATTATGTGGTTTGACAGCATTAGTGATTGTATTAGAAGGATTTG
CAAAAATAAAGATTATTCGTTTAGCAGTTACAGATGCAGTAACATTGGTTCAATTATTCT
TTAGTGTAATATGTTTTGTAACATCAAGAGCCACCCAAAAAATGCAAGATGAAGAAGAGG
AAGCACTTCATGGTGTTAAAAAACAAGAACTCCAACCAACTAATTCTGCTGCATCAACTC
CATCTTCTGCTCCACCATGTTATATTGTTGATGAGAAAAAAGATTCTGCTTCTCCATCTG
GTCAATCTAAAGATTCTGAACCTTCAGCAGTTTTACCAGCTTAAATATTTTTAAAAAATT
TTTAAAAATAATAAAAAACAATAATAATAATTTTATAATAAAAAAAAAAAAAAAAAAAAA
AAAAA
sequence update 1998. 3. 4
Translated Amino Acid sequence 
---*WLGTIILMLAGSLAMIIYNKPLQLQGLGTKTIVGQVWFNAVLALHSIYLIGVGFEL
ISRAYLMMVGSTCSEQRRGFLCCFVYSMSIWWKLMMILGVVSSIVLCGLTALVIVLEGFA
KIKIIRLAVTDAVTLVQLFFSVICFVTSRATQKMQDEEEEALHGVKKQELQPTNSAASTP
SSAPPCYIVDEKKDSASPSGQSKDSEPSAVLPA*iflknf*k**ktiiiil**kkkkkkk
k
Translated Amino Acid sequence (All Frames) 
Frame A:
---*WLGTIILMLAGSLAMIIYNKPLQLQGLGTKTIVGQVWFNAVLALHSIYLIGVGFEL
ISRAYLMMVGSTCSEQRRGFLCCFVYSMSIWWKLMMILGVVSSIVLCGLTALVIVLEGFA
KIKIIRLAVTDAVTLVQLFFSVICFVTSRATQKMQDEEEEALHGVKKQELQPTNSAASTP
SSAPPCYIVDEKKDSASPSGQSKDSEPSAVLPA*iflknf*k**ktiiiil**kkkkkkk
k


Frame B:
---ng*vply*c*qvvll*lsiinlynykd*vqkl*wdrcglmly*lyiqfi*lv*vsn*
fqehil*wlvqlvqnkeedfyvvlyiq*vfggn***f*vlfhllyyvv*qh**ly*kdlq
k*rlfv*qlqmq*hwfnyslv*yvl*hqeppkkckmkkrkhfmvlknknsnqlillhqlh
lllhhvillmrkkilllhlvnlkilnlqqfyqlkyf*kifknnkkq***fynkkkkkkkk


Frame C:
---mvryhyinvsr*scydyl**tftitriryknysgtgvv*ccisftfnlfnwcrfrin
fksisydgwfnlfrtkkrifmlfcifneylveinddfrccfiycimwfdsisdcirrick
nkdysfssyrcsnigsiil*cnmfcnikshpknar*rrgstswc*ktrtptn*fccinsi
fcstmlyc**ekrfcfsiwsi*rf*tfssftslnifkkflkiiknnnnnfiikkkkkkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSL143 (SSL143Q) /CSM/SS/SSL1-B/SSL143Q.Seq.d/                       1249   0.0
SSA351 (SSA351Q) /CSM/SS/SSA3-C/SSA351Q.Seq.d/                       1199   0.0
SSI872 (SSI872Q) /CSM/SS/SSI8-C/SSI872Q.Seq.d/                       1158   0.0
SSI720 (SSI720Q) /CSM/SS/SSI7-A/SSI720Q.Seq.d/                       1136   0.0
SSF570 (SSF570Q) /CSM/SS/SSF5-C/SSF570Q.Seq.d/                       1134   0.0
SSI669 (SSI669Q) /CSM/SS/SSI6-C/SSI669Q.Seq.d/                       1110   0.0
SSM532 (SSM532Q) /CSM/SS/SSM5-B/SSM532Q.Seq.d/                       1063   0.0
SSM275 (SSM275Q) /CSM/SS/SSM2-D/SSM275Q.Seq.d/                       1025   0.0
SSC273 (SSC273Q) /CSM/SS/SSC2-D/SSC273Q.Seq.d/                        922   0.0
SSJ488 (SSJ488Q) /CSM/SS/SSJ4-D/SSJ488Q.Seq.d/                        842   0.0
own update 2004.12.25
Homology vs DNA 

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

BX322665|BX322665.4 Zebrafish DNA sequence from clone DKEY-183N20 in linkage group 20.    44  0.066  5
AC090012|AC090012.8 Homo sapiens 12q BAC RP11-6F20 (Roswell Park Cancer Institute Human BAC Library) complete sequence.    38  0.12  6
AL158164|AL158164.15 Human DNA sequence from clone RP11-414K1 on chromosome 10.    48  0.15  1
AC027366|AC027366.1 Homo sapiens clone RP11-27F17, LOW-PASS SEQUENCE SAMPLING.    48  0.85  2
AC018583|AC018583.3 Homo sapiens clone RP11-6F20, WORKING DRAFT SEQUENCE, 10 unordered pieces.    38  1.4  5
AC131757|AC131757.3 Mus musculus chromosome 3 clone RP24-210I7, complete sequence.    38  1.6  2
AL929493|AL929493.13 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone CH211-157D2.    36  2.0  4
BF273477|BF273477.1 GA__Eb0018C05f Gossypium arboreum 7-10 dpa fiber library Gossypium arboreum cDNA clone GA__Eb0018C05f, mRNA sequence.    44  2.4  1
AC131469|AC131469.5 Rattus norvegicus clone CH230-193C19, WORKING DRAFT SEQUENCE, 1 ordered piece.    44  2.4  1
AC137839|AC137839.12 Medicago truncatula clone mth2-34j11, WORKING DRAFT SEQUENCE, 8 unordered pieces.    36  3.4  3
dna update 2003. 8. 9
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CP001150_1616(CP001150|pid:none) Rhodobacter sphaeroides KD131 c...    39   0.21
AJ010302_2(AJ010302|pid:none) Rhodobacter sphaeroides photosynth...    39   0.21
CP000143_1895(CP000143|pid:none) Rhodobacter sphaeroides 2.4.1 c...    39   0.21
AE017342_268(AE017342|pid:none) Cryptococcus neoformans var. neo...    37   0.47
GN107049_1(GN107049|pid:none) Sequence 11830 from Patent WO20090...    37   0.47
EU276418_1(EU276418|pid:none) Olive flounder iridovirus strain O...    36   1.0
AB043979_1(AB043979|pid:none) African lampeye iridovirus gene fo...    35   2.3
AY608684_1(AY608684|pid:none) Turbot reddish body iridovirus ade...    35   2.3
AB007367_1(AB007367|pid:none) Red sea bream iridovirus gene for ...    35   2.3
AF371960_123(AF371960|pid:none) Infectious spleen and kidney nec...    35   2.3
protein update 2009. 6.14
PSORT 

 psg: 0.96  gvh: 0.66  alm: 0.17  top: 0.60  tms: 0.20  mit: 0.16  mip: 0.24
 nuc: 0.00  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: 1.00  m_ : 0.00 

	 32.0 %: plasma membrane
	 24.0 %: endoplasmic reticulum
	 12.0 %: nuclear
	 12.0 %: mitochondrial
	  8.0 %: vacuolar
	  4.0 %: cytoskeletal
	  4.0 %: Golgi
	  4.0 %: cytoplasmic

>> prediction for SSL143 is pla
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID SSL143Z
3' end seq. 
>SSL143Z.Seq
----------TTAATGGTTAGGTACCATTATATTAATGTTAGCAGGTAGTCTTGCTATGA
TTATCTATAATAAACCTTTACAATTACAAGGATTAGGTACAAAAACTATAGTGGGACAGG
TGTGGTTTAATGCTGTATTAGCTTTACATTCAATTTATTTAATTGGTGTAGGTTTCGAAT
TAATTTCAAGAGCATATCTTATGATGGTTGGTTCAACTTGTTCAGAACAAAGAAGAGGAT
TTTTATGTTGTTTTGTATATTCAATGAGTATTTGGTGGAAATTAATGATGATTTTAGGTG
TTGTTTCATCTATTGTATTATGTGGTTTGACAGCATTAGTGATTGTATTAGAAGGATTTG
CAAAAATAAAGATTATTCGTTTAGCAGTTACAGATGCAGTAACATTGGTTCAATTATTCT
TTAGTGTAATATGTTTTGTAACATCAAGAGCCACCCAAAAAATGCAAGATGAAGAAGAGG
AAGCACTTCATGGTGTTAAAAAACAAGAACTCCAACCAACTAATTCTGCTGCATCAACTC
CATCTTCTGCTCCACCATGTTATATTGTTGATGAGAAAAAAGATTCTGCTTCTCCATCTG
GTCAATCTAAAGATTCTGAACCTTCAGCAGTTTTACCAGCTTAAATATTTTTAAAAAATT
TTTAAAAATAATAAAAAACAATAATAATAATTTTATAATAAAAAAAAAAAAAAAAAAAAA
AAAAA
Length of 3' end seq. 715
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -