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
SSK654
Library SS
(Link to library)
Clone ID SSK654
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13202-1
Original site URL
Representative seq. ID SSK654Z
(Link to Original site)
Representative DNA sequence 
>SSK654 (SSK654Q) /CSM/SS/SSK6-C/SSK654Q.Seq.d/
XXXXXXXXXXCTGGCCAAATTGTACTACCATTAGTCAGATTCAAAATCAAGCAAGATGTG
GTTCTTGTTGGGCTTTTGGTGCTACAGAATCAGCTACTGATCGTTTATGTATTCCCAATA
ATGAAAATGTTCAATTAAGTTTTATGGATATGGTTACTTGTGATGAAACTGATAACGGTT
GTGAAGGTGGTGATGCCTTCTCTGCATGGAATTGGTTAAGAAAGCAAGGTGCTGTATCAG
AAGAATGTCTTCCATATACAATTCCAACTTGTCCACCAGCTCAACAACCATGTTTAAATT
TTGTCAACACTCCATCATGTACTAAAGAGTGTCAATCAAATTCCTCTTTAATTTATTCTC
AAGACAAACATAAAATGGCTAAAATTTATTCTTTCGACTCTGATGAAGCAATCATGCAAG
AAATTGTTACTAATGGTCCAGTCGAAGCTTGTTTCACTGTCTTTGAAGATTTCCTTGCTT
ACAAATCTGGTGTTTACGTCCACACAACTGGTAAAGATTTAGGTGGTCACTGTGTTAAAC
TCGTTGGTTTCGGTACCTTAAATGGTGTTGATTACTATGCCGCTAACAACCAATGGACAA
CTTCATGGGGTGATAATGGAACTTTCTTAATCAAACGTGGTGATTGCGGTATCTCTGATG
ACGTTGTTGCTGGTTTACCATAAATAAAAATAAGTTTTAAACATTTTGTAATTTTAAAAA
AAAAAAAAAAAA
sequence update 1998. 2.27
Translated Amino Acid sequence 
---WPNCTTISQIQNQARCGSCWAFGATESATDRLCIPNNENVQLSFMDMVTCDETDNGC
EGGDAFSAWNWLRKQGAVSEECLPYTIPTCPPAQQPCLNFVNTPSCTKECQSNSSLIYSQ
DKHKMAKIYSFDSDEAIMQEIVTNGPVEACFTVFEDFLAYKSGVYVHTTGKDLGGHCVKL
VGFGTLNGVDYYAANNQWTTSWGDNGTFLIKRGDCGISDDVVAGLP*ikisfkhfvilkk
kkk
Translated Amino Acid sequence (All Frames) 
Frame A:
---WPNCTTISQIQNQARCGSCWAFGATESATDRLCIPNNENVQLSFMDMVTCDETDNGC
EGGDAFSAWNWLRKQGAVSEECLPYTIPTCPPAQQPCLNFVNTPSCTKECQSNSSLIYSQ
DKHKMAKIYSFDSDEAIMQEIVTNGPVEACFTVFEDFLAYKSGVYVHTTGKDLGGHCVKL
VGFGTLNGVDYYAANNQWTTSWGDNGTFLIKRGDCGISDDVVAGLP*ikisfkhfvilkk
kkk


Frame B:
---gqivlplvrfkikqdvvlvgllvlqnqllivyvfpimkmfn*vlwiwllvmklitvv
kvvmpslhgig*eskvlyqknvfhiqfqlvhqlnnhv*ilstlhhvlksvnqipl*filk
tnikwlkfilstlmkqsckklllmvqsklvslslkislltnlvftstqlvki*vvtvlns
lvsvp*mvlitmplttngqlhgvimels*snvviavslmtlllvyhk*k*vlnil*f*kk
kkk


Frame C:
---aklyyh*sdsksskmwfllgfwcyrisy*sfmysq**kcsikfygygyl**n**rl*
rw*cllcmelvkkarccirrmssiynsnlstssttmfkfcqhsimy*rvsikflfnlfsr
qt*ng*nlffrl**snharncy*wssrslfhcl*rfpclqiwclrphnw*rfrwslc*tr
wfrylkwc*llcr*qpmdnfmg**wnflnqtw*lryl**rccwftinknkf*tfcnfkkk
kk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSK654 (SSK654Q) /CSM/SS/SSK6-C/SSK654Q.Seq.d/                       1398   0.0
SSK863 (SSK863Q) /CSM/SS/SSK8-C/SSK863Q.Seq.d/                       1390   0.0
SLH613 (SLH613Q) /CSM/SL/SLH6-A/SLH613Q.Seq.d/                       1390   0.0
SSD418 (SSD418Q) /CSM/SS/SSD4-A/SSD418Q.Seq.d/                       1376   0.0
VSD136 (VSD136Q) /CSM/VS/VSD1-B/VSD136Q.Seq.d/                       1358   0.0
SFK635 (SFK635Q) /CSM/SF/SFK6-B/SFK635Q.Seq.d/                       1356   0.0
SSK787 (SSK787Q) /CSM/SS/SSK7-D/SSK787Q.Seq.d/                       1352   0.0
VFD555 (VFD555Q) /CSM/VF/VFD5-C/VFD555Q.Seq.d/                       1344   0.0
VFB609 (VFB609Q) /CSM/VF/VFB6-A/VFB609Q.Seq.d/                       1338   0.0
SSE709 (SSE709Q) /CSM/SS/SSE7-A/SSE709Q.Seq.d/                       1322   0.0
own update 2001.11.12
Homology vs DNA 

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

BG132206|BG132206.1 EST465098 tomato crown gall Lycopersicon esculentum cDNA clone cTOE6F18 5' sequence, mRNA sequence.    54  4e-05  2
BG887746|BG887746.1 EST513597 cSTD Solanum tuberosum cDNA clone cSTD7G17 5' sequence, mRNA sequence.    54  0.002  1
BM411000|BM411000.1 EST585327 tomato breaker fruit Lycopersicon esculentum cDNA clone cLEG55G20 5' end, mRNA sequence.    54  0.002  1
AW928683|AW928683.1 EST337471 tomato flower buds 8 mm to pre-anthesis, Cornell University Lycopersicon esculentum cDNA clone cTOC2D20 5', mRNA sequence.    54  0.002  1
BM412012|BM412012.1 EST586339 tomato breaker fruit Lycopersicon esculentum cDNA clone cLEG58N15 5' end, mRNA sequence.    54  0.002  1
BG889159|BG889159.1 EST515010 cSTD Solanum tuberosum cDNA clone cSTD13M7 5' sequence, mRNA sequence.    54  0.002  1
BF098253|BF098253.1 EST428862 tomato nutrient deficient roots Lycopersicon esculentum cDNA clone cLEW26B5 5' sequence, mRNA sequence.    54  0.002  1
CA524127|CA524127.1 KS12033B12 KS12 Capsicum annuum cDNA, mRNA sequence.    54  0.002  1
AW035789|AW035789.1 EST281943 tomato callus, TAMU Lycopersicon esculentum cDNA clone cLEC36D22, mRNA sequence.    54  0.002  1
BE473010|BE473010.1 EST417863 potato stolon, Cornell University Solanum tuberosum cDNA clone cSTA35F24, mRNA sequence.    54  0.002  1
dna update 2003. 8. 9
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54QD9) RecName: Full=Cathepsin B;          EC=3.4.22.1; AltNam...   479   e-134
EU532428_1(EU532428|pid:none) Sus scrofa cathepsin B (CTSB) gene...   227   3e-58
(A1E295) RecName: Full=Cathepsin B;          EC=3.4.22.1; Contai...   227   3e-58
BC072490_1(BC072490|pid:none) Rattus norvegicus cathepsin B, mRN...   225   1e-57
(P00787) RecName: Full=Cathepsin B;          EC=3.4.22.1; AltNam...   225   1e-57
M11305_1(M11305|pid:none) Rat cathepsin B mRNA, 3' end.               225   1e-57
(P07688) RecName: Full=Cathepsin B;          EC=3.4.22.1; AltNam...   224   3e-57
BC115254_1(BC115254|pid:none) Danio rerio capthepsin B, b, mRNA ...   223   6e-57
AC149038_4(AC149038|pid:none) Medicago truncatula chromosome 7 c...   219   5e-56
AB377273_1(AB377273|pid:none) Raphanus sativus CatB mRNA for cat...   219   5e-56
protein update 2009. 6.14
PSORT 

 psg: 0.81  gvh: 0.46  alm: 0.46  top: 0.53  tms: 0.00  mit: 0.31  mip: 0.04
 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: 0.00  m_ : 1.00 

	 36.0 %: nuclear
	 32.0 %: cytoplasmic
	 20.0 %: mitochondrial
	  8.0 %: cytoskeletal
	  4.0 %: endoplasmic reticulum

>> prediction for SSK654 is nuc
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID SSK654Z
3' end seq. 
>SSK654Z.Seq
----------CTGGCCAAATTGTACTACCATTAGTCAGATTCAAAATCAAGCAAGATGTG
GTTCTTGTTGGGCTTTTGGTGCTACAGAATCAGCTACTGATCGTTTATGTATTCCCAATA
ATGAAAATGTTCAATTAAGTTTTATGGATATGGTTACTTGTGATGAAACTGATAACGGTT
GTGAAGGTGGTGATGCCTTCTCTGCATGGAATTGGTTAAGAAAGCAAGGTGCTGTATCAG
AAGAATGTCTTCCATATACAATTCCAACTTGTCCACCAGCTCAACAACCATGTTTAAATT
TTGTCAACACTCCATCATGTACTAAAGAGTGTCAATCAAATTCCTCTTTAATTTATTCTC
AAGACAAACATAAAATGGCTAAAATTTATTCTTTCGACTCTGATGAAGCAATCATGCAAG
AAATTGTTACTAATGGTCCAGTCGAAGCTTGTTTCACTGTCTTTGAAGATTTCCTTGCTT
ACAAATCTGGTGTTTACGTCCACACAACTGGTAAAGATTTAGGTGGTCACTGTGTTAAAC
TCGTTGGTTTCGGTACCTTAAATGGTGTTGATTACTATGCCGCTAACAACCAATGGACAA
CTTCATGGGGTGATAATGGAACTTTCTTAATCAAACGTGGTGATTGCGGTATCTCTGATG
ACGTTGTTGCTGGTTTACCATAAATAAAAATAAGTTTTAAACATTTTGTAATTTTAAAAA
AAAAAAAAAAAA
Length of 3' end seq. 722
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -