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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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
SSH190
Library SS
(Link to library)
Clone ID SSH190
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16136-1
Original site URL
Representative seq. ID SSH190F
(Link to Original site)
Representative DNA sequence 
>SSH190 (SSH190Q) /CSM/SS/SSH1-D/SSH190Q.Seq.d/
AGATAATCAAATAAATACTCTATAATATATTATATATTAGTTAATAATAATAATAATAAT
AATAATAATAATAATAGTAATAGTAAATATATAAACAAAATACAAATAAAAATATAAAAA
ATGAATAATTTACGTGTTAAAGATGATTTCGATTATGAAGATATTATGGATGAAGAGTCC
TTAATGGATAATATGAATGAACATGGTAAAACTTTAGTTCACACTGAATTCTTTAATAGT
TTTGAAGATGATTTTGAAGATGAATTTGAAGAAGATAGTTTAAAATTCAACGTTAAAAAT
GATAACAATAATAACAACAACTTCXXXXXXXXXX
sequence update 1998. 9.10
Translated Amino Acid sequence 
r*snkysiiyyilvnnnnnnnnnnnsnskyinkiqiki*KMNNLRVKDDFDYEDIMDEES
LMDNMNEHGKTLVHTEFFNSFEDDFEDEFEEDSLKFNVKNDNNNNNN---
Translated Amino Acid sequence (All Frames) 
Frame A:
r*snkysiiyyilvnnnnnnnnnnnsnskyinkiqiki*KMNNLRVKDDFDYEDIMDEES
LMDNMNEHGKTLVHTEFFNSFEDDFEDEFEEDSLKFNVKNDNNNNNN---


Frame B:
dnqintl*yiiy*liiiiiiiiiiivivni*tkyk*kykk*iiyvlkmisimkilwmksp
*wii*mnmvkl*ftlnslivlkmilkmnlkkiv*nstlkmitiittt---


Frame C:
iik*ilynilyis***************iykqntnknikne*ftc*r*frl*ryyg*rvl
ng*ye*tw*nfssh*il**f*r*f*r*i*rr*fkiqr*k**q**qql---
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSI457 (VSI457Q) /CSM/VS/VSI4-C/VSI457Q.Seq.d/                        402   e-111
SSH190 (SSH190Q) /CSM/SS/SSH1-D/SSH190Q.Seq.d/                        402   e-111
AFL553 (AFL553Q) /CSM/AF/AFL5-C/AFL553Q.Seq.d/                        402   e-111
SSJ437 (SSJ437Q) /CSM/SS/SSJ4-B/SSJ437Q.Seq.d/                        387   e-107
FC-BP22 (FC-BP22Q) /CSM/FC/FC-BP/FC-BP22Q.Seq.d/                      232   3e-60
VHN756 (VHN756Q) /CSM/VH/VHN7-C/VHN756Q.Seq.d/                         40   0.021
VFN225 (VFN225Q) /CSM/VF/VFN2-B/VFN225Q.Seq.d/                         40   0.021
VFK542 (VFK542Q) /CSM/VF/VFK5-B/VFK542Q.Seq.d/                         40   0.021
VFI527 (VFI527Q) /CSM/VF/VFI5-B/VFI527Q.Seq.d/                         40   0.021
VFB230 (VFB230Q) /CSM/VF/VFB2-B/VFB230Q.Seq.d/                         40   0.021
own update 2009. 4. 4
Homology vs DNA 

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

AL929352|AL929352.1 Plasmodium falciparum strain 3D7, chromosome 5, segment 2/4.    40   4e-06  9
AC116977|AC116977.2 Dictyostelium discoideum chromosome 2 map 5515173-5817331 strain AX4, complete sequence.    38   4e-05  7
AC116988|AC116988.2 Dictyostelium discoideum chromosome 2 map 6445720-6776760 strain AX4, complete sequence.    40   6e-04  8
AL035475|AL035475.7 Plasmodium falciparum MAL4P2.                  42   0.001  4
AL844509|AL844509.1 Plasmodium falciparum chromosome 13.           40   0.005  15
AE014832|AE014832.1 Plasmodium falciparum 3D7 chromosome 10 section 4 of 7 of the complete sequence.    40   0.006  6
AC145998|AC145998.1 Pan troglodytes chromosome UNK clone RP43-135B9, *** SEQUENCING IN PROGRESS ***, 41 unordered pieces.    38   0.009  3
AC116984|AC116984.2 Dictyostelium discoideum chromosome 2 map 2567470-3108875 strain AX4, complete sequence.    38   0.009  8
AC004688|AC004688.8 Plasmodium falciparum chromosome 12 clone 3D7, *** SEQUENCING IN PROGRESS ***, 4 unordered pieces.    40   0.010  6
BX649534|BX649534.9 Zebrafish DNA sequence from clone DKEY-31F5 in linkage group 4.    36   0.012  2
dna update 2004. 2.14
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC146564_26(AC146564|pid:none) Medicago truncatula clone mth2-67...    33   2.4
AC137510_17(AC137510|pid:none) Medicago truncatula clone mth2-8m...    33   2.4
protein update 2009. 1.31
PSORT 

 psg: 0.48  gvh: 0.20  alm: 0.68  top: 0.53  tms: 0.00  mit: 0.19  mip: 0.02
 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 

	 48.0 %: nuclear
	 24.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: vacuolar
	  4.0 %: plasma membrane
	  4.0 %: vesicles of secretory system

>> prediction for SSH190 is nuc
5' end seq. ID SSH190F
5' end seq. 
>SSH190F.Seq
AGATAATCAAATAAATACTCTATAATATATTATATATTAGTTAATAATAATAATAATAAT
AATAATAATAATAATAGTAATAGTAAATATATAAACAAAATACAAATAAAAATATAAAAA
ATGAATAATTTACGTGTTAAAGATGATTTCGATTATGAAGATATTATGGATGAAGAGTCC
TTAATGGATAATATGAATGAACATGGTAAAACTTTAGTTCACACTGAATTCTTTAATAGT
TTTGAAGATGATTTTGAAGATGAATTTGAAGAAGATAGTTTAAAATTCAACGTTAAAAAT
GATAACAATAATAACAACAACTTC----------
Length of 5' end seq. 324
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. -