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
SSH732
Library SS
(Link to library)
Clone ID SSH732
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U12272-1
Original site URL
Representative seq. ID SSH732F
(Link to Original site)
Representative DNA sequence 
>SSH732 (SSH732Q) /CSM/SS/SSH7-B/SSH732Q.Seq.d/
AAAAAACAAAAAACAAATACTTTCATAAATCATACATATATATAAACAAAACTAATATTT
TAAAAAAAATATCGTTTTTTTTCCATTTTTAAATCAAATAGAAATACTACCACAACAACC
AAAAAATTAAAAATGACATCAGCTACTAATAATAATTCAAGTTCTACTGAACAACAACAA
GCAGTATTATATCAAAAAATATTTAAGAAAATCTATGAAAGTAAAGCTGGTACAAATAAG
AATTCATGGGAATATTTTTCATTGGGTTTAACAGTTTATCAATGGTTAACAGAGAACGAT
CCAGTTTATACTCATACATTGGTTCTTGAAGATGTTXXXXXXXXXX
sequence update 1999. 1.17
Translated Amino Acid sequence 
kkqktntfinhtyi*tklif*KKYRFFSIFKSNRNTTTTTKKLKMTSATNNNSSSTEQQQ
AVLYQKIFKKIYESKAGTNKNSWEYFSLGLTVYQWLTENDPVYTHTLVLED---
Translated Amino Acid sequence (All Frames) 
Frame A:
kkqktntfinhtyi*tklif*KKYRFFSIFKSNRNTTTTTKKLKMTSATNNNSSSTEQQQ
AVLYQKIFKKIYESKAGTNKNSWEYFSLGLTVYQWLTENDPVYTHTLVLED---


Frame B:
knkkqils*iihiykqn*yfkknivffpflnqieilpqqpkn*k*hqlliiiqvllnnnk
qyyikkylrksmkvklvqirihgnifhwv*qfing*qrtiqfilihwflkm---


Frame C:
ktknkyfhksyiyinktnilkkisfffhf*ik*kyyhnnqkikndisy***fkfy*ttts
siiskni*enl*k*swyk*efmgiffigfnslsmvnrersslysyigs*rc---
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSL833 (SSL833Q) /CSM/SS/SSL8-B/SSL833Q.Seq.d/                        402   e-111
SSH732 (SSH732Q) /CSM/SS/SSH7-B/SSH732Q.Seq.d/                        402   e-111
SSJ786 (SSJ786Q) /CSM/SS/SSJ7-D/SSJ786Q.Seq.d/                        383   e-105
SHF883 (SHF883Q) /CSM/SH/SHF8-D/SHF883Q.Seq.d/                         94   2e-18
SSE210 (SSE210Q) /CSM/SS/SSE2-A/SSE210Q.Seq.d/                         76   4e-13
VHI650 (VHI650Q) /CSM/VH/VHI6-C/VHI650Q.Seq.d/                         38   0.084
VHE125 (VHE125Q) /CSM/VH/VHE1-B/VHE125Q.Seq.d/                         38   0.084
VHB748 (VHB748Q) /CSM/VH/VHB7-B/VHB748Q.Seq.d/                         38   0.084
VHB663 (VHB663Q) /CSM/VH/VHB6-C/VHB663Q.Seq.d/                         38   0.084
SHL252 (SHL252Q) /CSM/SH/SHL2-C/SHL252Q.Seq.d/                         38   0.084
own update 2002.12.13
Homology vs DNA 

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

AC108714|AC108714.3 Homo sapiens 3p BAC RP11-146G16 (Roswell Park Cancer Institute Human BAC Library) complete sequence.    46  0.007  2
AP004626|AP004626.1 Lotus corniculatus var. japonicus genomic DNA, chromosome 5, clone:LjT01J10a, TM0090a.    46  0.091  3
AX251775|AX251775.1 Sequence 36 from Patent WO0168911.            38  0.27  2
AZ522008|AZ522008.1 201PbB03 Pb MBN #21 Plasmodium berghei genomic 3', DNA sequence.    46  0.28  1
AC109782|AC109782.7 Homo sapiens 3 BAC RP11-346M10 (Roswell Park Cancer Institute Human BAC Library) complete sequence.    46  0.28  1
AC003022|AC003022.2 Mus musculus clone BAC276o8, *** SEQUENCING IN PROGRESS ***, 25 unordered pieces.    40  0.31  3
AC004710|AC004710.3 Plasmodium falciparum chromosome 12, WORKING DRAFT SEQUENCE, 2 unordered pieces.    36  0.32  6
AX659088|AX659088.1 Sequence 59 from Patent WO02103041.           38  0.37  3
AX657814|AX657814.1 Sequence 59 from Patent WO02103042.           38  0.37  3
AX349075|AX349075.1 Sequence 1 from Patent WO0202808.             38  0.37  3
dna update 2003. 8. 8
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: 448,830,131
protein update 2009. 6.13
PSORT 

 psg: 0.58  gvh: 0.32  alm: 0.58  top: 0.53  tms: 0.00  mit: 0.50  mip: 0.03
 nuc: 0.00  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 %: mitochondrial
	 16.0 %: nuclear
	  8.0 %: cytoplasmic
	  4.0 %: cytoskeletal
	  4.0 %: endoplasmic reticulum

>> prediction for SSH732 is mit
5' end seq. ID SSH732F
5' end seq. 
>SSH732F.Seq
AAAAAACAAAAAACAAATACTTTCATAAATCATACATATATATAAACAAAACTAATATTT
TAAAAAAAATATCGTTTTTTTTCCATTTTTAAATCAAATAGAAATACTACCACAACAACC
AAAAAATTAAAAATGACATCAGCTACTAATAATAATTCAAGTTCTACTGAACAACAACAA
GCAGTATTATATCAAAAAATATTTAAGAAAATCTATGAAAGTAAAGCTGGTACAAATAAG
AATTCATGGGAATATTTTTCATTGGGTTTAACAGTTTATCAATGGTTAACAGAGAACGAT
CCAGTTTATACTCATACATTGGTTCTTGAAGATGTT----------
Length of 5' end seq. 336
3' end seq. ID -
3' end seq. -
Length of 3' end seq. -
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -