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
SSH325
Library SS
(Link to library)
Clone ID SSH325
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U12240-1
Original site URL
Representative seq. ID SSH325P
(Link to Original site)
Representative DNA sequence 
>SSH325 (SSH325Q) /CSM/SS/SSH3-B/SSH325Q.Seq.d/
AAAAAAATACTCGTTTATAAAAAAAATAAAATAATATAGATAAACAAGTCATGATAATAA
ATTTGACACTATAACAAACATTTCATCTATTTTTAACAATAATTTATAAAATTATTAAAC
CAACATAAACAAAACTTTTCAAATTATATATTTTTCAAAACATAAATTATTTTAATATTA
TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAXXXXXXXXXXGAAAAAAAATTTCCAAAAA
CAGTTTTTCCCATAATTACGGATCNTCAAAATCNTANTAAATTTAATTAAAAAAAAAAAA
AAAAAAAANTTATTNGTAATNCCGTAGCANTAATTTTAGTAAAATAAAAAAAAAAAAAAA
AGGAAAAAAAACCCACACTAAAAAAAAACACACACACACACACACCACAACACCCACACT
TTATACATTATATTAAATTTACATTCATCTCATTATAATATCCCCGAAGGGTTTTTATTT
ATTTATTTATTTGGTTTTTGATTTTATATTAAAAGCCTTAGATTCAATTAATAATAAAAA
GATTACATTGGTTTCAAATATTAAAGTGAACCACCACTAATAATACAATAAAATATAAAA
TATAAATAATAGTAACACTAGGAATAATCAAATATTCAATGTTAAAGTTTAAATACTAGT
AGTACCCAACAACGCAATTATATATATATAGTAAAAAAATAAAAAAATATCACCATATAA
ATAAAATATATATAAACCAATATATATTTCAACACCCACGCACAATTTTATTTTAAAAAT
ATTTTGTGTCAGCAATTACTTATAATACAGTAATAATAATAATAATAATAATATAGCTTC
TACACACAAAAGAGTAAAAAAAATTAAAAAACAAATTTTTTTTCAAGATACAGATAAATT
ATAAAATTTGACGATACTTTAAAAAAAAAGTTNTTAAAAA
sequence update 1999. 1.21
Translated Amino Acid sequence 
kntrl*kk*nnidkqvmiinltl*qtfhlfltiiykiikpt*TKLFKLYIFQNINYFNII
KKKKKKKKK---

---EKKFPKTVFPIITDXQNXXKFN*kkkkkkxixnxvaxilvk*kkkkkekkptlkknt
hthtpqhphfihyikftfisl*yprrvfiylfiwflily*kp*iqliikrlhwfqilk*t
ttnntikyki*iivtlgiikysmlkfky**ypttqlyiyskkikkyhhinkiyinqyifq
hprtilf*kyfvsaityntviiiiiii*llhtke*kklknkfffkiqinyki*ryfkkkv
xk
Translated Amino Acid sequence (All Frames) 
Frame A:
kkilvykknkii*inks***i*hynkhfiyf*q*fikllnqhkqnfsnyiffkt*iilil
*kkkkkkkkk---

---EKKFPKTVFPIITDXQNXXKFN*kkkkkkxixnxvaxilvk*kkkkkekkptlkknt
hthtpqhphfihyikftfisl*yprrvfiylfiwflily*kp*iqliikrlhwfqilk*t
ttnntikyki*iivtlgiikysmlkfky**ypttqlyiyskkikkyhhinkiyinqyifq
hprtilf*kyfvsaityntviiiiiii*llhtke*kklknkfffkiqinyki*ryfkkkv
xk

Frame B:
kkysfikkik*yr*tshdnkfdtitnissifnnnl*ny*tninktfqiiyfskhklf*yy
kkkkkkkkkk---

---kknfqkqffp*lrixkixxnlikkkkkkxlxvxp*x*f**nkkkkkrkknph*kkth
ththhnthtlyiilnlhsshynipegflfiylfgf*fyikslrfn***kdyigfky*sep
pliiq*nikyk***h*e*sniqc*slntsstqqrnyiyivkk*kniti*ikyi*tniyfn
thaqfyfknilcqqlliiq*******ysfytqkskkn*ktnffsryr*iikfddtlkkkx
lk

Frame C:
kntrl*kk*nnidkqvmiinltl*qtfhlfltiiykiikpt*TKLFKLYIFQNINYFNII
KKKKKKKKK---

---kkisknsfshnygssksx*i*lkkkkkkxyx*xrsxnfskikkkkkgkkthtkkkht
hthtttptlytly*iyihliiispkgfylfiylvfdfilkaldsinnkkitlvsnikvnh
h**ynki*ninnsntrnnqifnvkv*ilvvpnnaiiyi**knkkispyk*niykpiyist
pthnfilkifcvsnyl*ysnnnnnnniasthkrvkkikkqiffqdtdkl*nltil*kksx
*k
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SSH325 (SSH325Q) /CSM/SS/SSH3-B/SSH325Q.Seq.d/                        272   9e-72
SHE229 (SHE229Q) /CSM/SH/SHE2-B/SHE229Q.Seq.d/                        258   1e-67
VSG402 (VSG402Q) /CSM/VS/VSG4-A/VSG402Q.Seq.d/                        131   2e-29
VSG155 (VSG155Q) /CSM/VS/VSG1-C/VSG155Q.Seq.d/                        103   5e-21
SSH796 (SSH796Q) /CSM/SS/SSH7-D/SSH796Q.Seq.d/                         62   2e-08
VFO663 (VFO663Q) /CSM/VF/VFO6-C/VFO663Q.Seq.d/                         42   0.015
VFM211 (VFM211Q) /CSM/VF/VFM2-A/VFM211Q.Seq.d/                         42   0.015
SFE711 (SFE711Q) /CSM/SF/SFE7-A/SFE711Q.Seq.d/                         42   0.015
SFB104 (SFB104Q) /CSM/SF/SFB1-A/SFB104Q.Seq.d/                         42   0.015
VSG329 (VSG329Q) /CSM/VS/VSG3-B/VSG329Q.Seq.d/                         38   0.24
own update 2003. 6.14
Homology vs DNA 

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

(AU038143) Dictyostelium discoideum slug cDNA, clone SSH325.      131   e-134  7
(AU266421) Dictyostelium discoideum vegetative cDNA clone:VS...   131   5e-51  2
(AU073476) Dictyostelium discoideum slug cDNA, clone SSH325.      159   2e-34  1
(BJ393715) Dictyostelium discoideum cDNA clone:dds32i08, 5' ...   145   4e-30  1
(AU266052) Dictyostelium discoideum vegetative cDNA clone:VS...   103   1e-17  1
(AU038502) Dictyostelium discoideum slug cDNA, clone SSH796.       46   1e-05  2
(AJ831589) Cacoecimorpha pronubana mitochondrial tRNA-Leu (C...    44   0.001  3
(AC115581) Dictyostelium discoideum chromosome 2 map complem...    40   0.025  5
(AL714006) Mouse DNA sequence from clone RP23-173E15 on chro...    52   0.041  1
(CU550668) Pig DNA sequence *** SEQUENCING IN PROGRESS *** f...    42   0.10   4
dna update 2009. 7.16
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: 703,715,142
protein update 2009. 6.12
PSORT 

 psg: 0.75  gvh: 0.23  alm: 0.51  top: 0.53  tms: 0.00  mit: 0.30  mip: 0.00
 nuc: 0.49  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 

	 88.0 %: nuclear
	  4.0 %: cytoskeletal
	  4.0 %: plasma membrane
	  4.0 %: cytoplasmic

>> prediction for SSH325 is nuc
5' end seq. ID SSH325F
5' end seq. 
>SSH325F.Seq
AAAAAAATACTCGTTTATAAAAAAAATAAAATAATATAGATAAACAAGTCATGATAATAA
ATTTGACACTATAACAAACATTTCATCTATTTTTAACAATAATTTATAAAATTATTAAAC
CAACATAAACAAAACTTTTCAAATTATATATTTTTCAAAACATAAATTATTTTAATATTA
TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA----------
Length of 5' end seq. 211
3' end seq. ID SSH325Z
3' end seq. 
>SSH325Z.Seq
----------GAAAAAAAATTTCCAAAAACAGTTTTTCCCATAATTACGGATCNTCAAAA
TCNTANTAAATTTAATTAAAAAAAAAAAAAAAAAAAANTTATTNGTAATNCCGTAGCANT
AATTTTAGTAAAATAAAAAAAAAAAAAAAAGGAAAAAAAACCCACACTAAAAAAAAACAC
ACACACACACACACCACAACACCCACACTTTATACATTATATTAAATTTACATTCATCTC
ATTATAATATCCCCGAAGGGTTTTTATTTATTTATTTATTTGGTTTTTGATTTTATATTA
AAAGCCTTAGATTCAATTAATAATAAAAAGATTACATTGGTTTCAAATATTAAAGTGAAC
CACCACTAATAATACAATAAAATATAAAATATAAATAATAGTAACACTAGGAATAATCAA
ATATTCAATGTTAAAGTTTAAATACTAGTAGTACCCAACAACGCAATTATATATATATAG
TAAAAAAATAAAAAAATATCACCATATAAATAAAATATATATAAACCAATATATATTTCA
ACACCCACGCACAATTTTATTTTAAAAATATTTTGTGTCAGCAATTACTTATAATACAGT
AATAATAATAATAATAATAATATAGCTTCTACACACAAAAGAGTAAAAAAAATTAAAAAA
CAAATTTTTTTTCAAGATACAGATAAATTATAAAATTTGACGATACTTTAAAAAAAAAGT
TNTTAAAAA
Length of 3' end seq. 719
Connected seq. ID SSH325P
Connected seq. 
>SSH325P.Seq
AAAAAAATACTCGTTTATAAAAAAAATAAAATAATATAGATAAACAAGTCATGATAATAA
ATTTGACACTATAACAAACATTTCATCTATTTTTAACAATAATTTATAAAATTATTAAAC
CAACATAAACAAAACTTTTCAAATTATATATTTTTCAAAACATAAATTATTTTAATATTA
TAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA----------GAAAAAAAATTTCCAAAAA
CAGTTTTTCCCATAATTACGGATCNTCAAAATCNTANTAAATTTAATTAAAAAAAAAAAA
AAAAAAAANTTATTNGTAATNCCGTAGCANTAATTTTAGTAAAATAAAAAAAAAAAAAAA
AGGAAAAAAAACCCACACTAAAAAAAAACACACACACACACACACCACAACACCCACACT
TTATACATTATATTAAATTTACATTCATCTCATTATAATATCCCCGAAGGGTTTTTATTT
ATTTATTTATTTGGTTTTTGATTTTATATTAAAAGCCTTAGATTCAATTAATAATAAAAA
GATTACATTGGTTTCAAATATTAAAGTGAACCACCACTAATAATACAATAAAATATAAAA
TATAAATAATAGTAACACTAGGAATAATCAAATATTCAATGTTAAAGTTTAAATACTAGT
AGTACCCAACAACGCAATTATATATATATAGTAAAAAAATAAAAAAATATCACCATATAA
ATAAAATATATATAAACCAATATATATTTCAACACCCACGCACAATTTTATTTTAAAAAT
ATTTTGTGTCAGCAATTACTTATAATACAGTAATAATAATAATAATAATAATATAGCTTC
TACACACAAAAGAGTAAAAAAAATTAAAAAACAAATTTTTTTTCAAGATACAGATAAATT
ATAAAATTTGACGATACTTTAAAAAAAAAGTTNTTAAAAA
Length of connected seq. 930
Full length Seq ID -
Full length Seq. -
Length of full length seq. -