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Dicty_cDB
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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
SHH465
Library SH
(Link to library)
Clone ID SHH465
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16406-1|Contig-U16521-1
Original site URL
Representative seq. ID SHH465P
(Link to Original site)
Representative DNA sequence 
>SHH465 (SHH465Q) /CSM/SH/SHH4-C/SHH465Q.Seq.d/
AAATGTTTATAACGGATCTCTATGCAAATAAGAAAAAGGACGTACGAATGAACGAAAGGT
TATAGGGAAAATATAAAAAAGAGTTAGCAATAGCAATTGAAGATCTATAAATATCCGAAG
GGAGACCAAGAAAAAGAAGAAACGCAGTGAAGTGAAACATCTTAGTAACTGTAGGAAAAA
AAATCAAAAGAGATGCGGTAAGTAGTGGTGAGCGAAAGCCGAGGAGAGTAAAAGTAGACC
ATTAGAAGAAAACTGAAGAAACTAGGTGGAAATCCAAGGCAGAATAAGGTGAAAGTCCAG
TAAGGTAAGGGACTAATGGTAAAGAAGTAAAACGAAGAAAGGAGGAATTTGTTTGAAAAA
TGGGGGCCCACCCCCAAACTCAATATATGCTTATTTGACTGATAGTGAACAAGTACTGTG
AAGGAAAGATGAAAAGGAATATAGAAGTTATCTATTCAGTGAAAAGACCGTGAAATTGTA
AACATGATGAGCAGTTGGAGTTAAGTGACAACGTACCTTTTGTATAATGGGTCAGCGAGT
TAATAAATCGTAGCAAGCTTAAGGTAGTAACTATAGGCGCAGCGAAAGCGTATCTTAATX
XXXXXXXXXGTGTTACATGAGCTGGGTTTAAAACGTCGTGAGACAGTTTGGTCCCTATCT
ACTGTTAAAAACAAAAAAATTAAAATCCTTCCTTTAGTACGAGAGGACTGAGGTGGGTCG
ATCACTGGTGTATTAATTATTATAACAATAGTACCGTTAAGTAGCTACATCGAAATATTA
ATAATATATAGTATTATTAAGAGAGAACTGCTGAAAAAATATTAAGTAGGAAACTTATTT
TAGATTTTTTTATAGTCAGGTAAAAGATTATTACTTTGATAGGCTACATATAGAAATGAA
TAGTAATATAATATAAAAATTTGAAAAAATTTTTCCATTAATTCTATAATTAATGTGATC
TTATTTATTAAGATTAGTAAAGTAGTACTAAATATGGATGACGTATTTTAAAATACATTT
TTTTCTTTATTTTTTTTTTATTAAATAAAATATATAGTAACATTAGCATTAGTAATAATA
TAATATAATATTACAAAAAGCAAAATTTATNTTTNATCAAAT
sequence update 2002.10.25
Translated Amino Acid sequence 
mfitdlyankkkdvrmnerl*gkykkelaiaiedl*isegrprkrrnavk*nilvtvgkk
ikrdavssgerkprrvkvdh*kkteetrwkskae*gespvr*gtngkevkrrkeefv*km
gahpqtqymli*livnkycegkmkrnieviysvkrp*nckhdeqlelsdnvpfv*WVSEL
INRSKLKVVTIGAAKAYLN---

---VLHELGLKRRETVWSLSTVKNKKIKILPLVRED*ggsitgvliiitivplssyieil
iiysiikrellkky*vgnlf*ifl*sgkrlll**atyrne**yniki*knfsinsiinvi
lfikiskvvlnmddvf*ntffslfffy*ikyivtlalvii*ynitkskiyxxsn
Translated Amino Acid sequence (All Frames) 
Frame A:
kcl*rismqirkrtye*tkgyrenikks*q*qlkiykypkgdqekeetq*sets**l*ek
kskemr*vvvsesrge*k*tirrklkklggnprqnkvkvq*gkglmvkk*neerrnlfek
wgptpklniclfd***tstvker*kgi*klsiq*kdreivnmmssws*vttyllyngsas
**ivaslr**l*aqrkril---

---VLHELGLKRRETVWSLSTVKNKKIKILPLVRED*ggsitgvliiitivplssyieil
iiysiikrellkky*vgnlf*ifl*sgkrlll**atyrne**yniki*knfsinsiinvi
lfikiskvvlnmddvf*ntffslfffy*ikyivtlalvii*ynitkskiyxxsn

Frame B:
nvyngslck*ekgrtnerkvigki*krvsnsn*rsinirretkkkkkrsevkhlsncrkk
nqkrcgk*w*akaeesksrpleen*rn*veiqgrir*ksskvrd*w*rsktkkggiclkn
ggpppnsiyayltdseqvl*rkdekeyrsylfsektvkl*t**avgvk*qrtfcimgqrv
nks*qa*gsnyrrsesvs*---

---cymswv*nvvrqfgpylllktkklksfl*yertevgrslvy*ll*q*yr*vatsky*
*yivllrenc*knik*etyfrffysqvkdyyfdrlhiemnsnii*kfekifplil*lm*s
yllrlvk*y*iwmtyfkihfflyfffik*ni**h*h***yniilqkakfxfxq

Frame C:
mfitdlyankkkdvrmnerl*gkykkelaiaiedl*isegrprkrrnavk*nilvtvgkk
ikrdavssgerkprrvkvdh*kkteetrwkskae*gespvr*gtngkevkrrkeefv*km
gahpqtqymli*livnkycegkmkrnieviysvkrp*nckhdeqlelsdnvpfv*WVSEL
INRSKLKVVTIGAAKAYLN---

---vt*agfkts*dslvpiyc*kqkn*npsfstrglrwvdhwcinyynnstvk*lhrnin
ni*yy*ertaekilsrklildffivr*kiitligyi*k*ivi*yknlkkffh*fyn*cdl
iy*d**sstkyg*rilkyifffiffllnkiysnisisnnii*yykkqnlxxik
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHH465 (SHH465Q) /CSM/SH/SHH4-C/SHH465Q.Seq.d/                       1213   0.0
MIT-GENOME (MIT-GENOMEQ) /CSM/OTHERS/MIT-GENOMEQ.Seq.d/              1140   0.0
SHC457 (SHC457Q) /CSM/SH/SHC4-C/SHC457Q.Seq.d/                       1132   0.0
SLA839 (SLA839Q) /CSM/SL/SLA8-B/SLA839Q.Seq.d/                        977   0.0
SHG307 (SHG307Q) /CSM/SH/SHG3-A/SHG307Q.Seq.d/                        971   0.0
VSF783 (VSF783Q) /CSM/VS/VSF7-D/VSF783Q.Seq.d/                        646   0.0
VHO432 (VHO432Q) /CSM/VH/VHO4-B/VHO432Q.Seq.d/                        615   e-175
CHI887 (CHI887Q) /CSM/CH/CHI8-D/CHI887Q.Seq.d/                        615   e-175
VSB752 (VSB752Q) /CSM/VS/VSB7-C/VSB752Q.Seq.d/                        603   e-171
CHF548 (CHF548Q) /CSM/CH/CHF5-B/CHF548Q.Seq.d/                        599   e-170
own update 2004.12.25
Homology vs DNA 

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

D16466|D16466.1 Dictyostelium discoideum mitochondrial DNA.       825   0.0    2
AB000109|AB000109.1 Dictyostelium discoideum mitochondrial DNA, complete sequence.   825   0.0    2
DQ336395|DQ336395.1 Dictyostelium citrinum mitochondrion, complete genome.   291   0.0    12
U21880|U21880.1 Dictyostelium discoideum mitochondrion large subunit rRNA (rrn) gene, mitochondrial gene encoding mitochondrial rRNA, partial sequence.   248   e-121  2
AY700145|AY700145.1 Polysphondylium pallidum mitochondrion DNA, complete sequence.   119   3e-93  16
AJ512794|AJ512794.1 Dictyostelium discoideum mRNA for LIS1 protein.   242   1e-59  1
AJ512336|AJ512336.1 Dictyostelium discoideum mRNA for LIS1 protein.   242   1e-59  1
D61390|D61390.1 Dictyostelium mucoroides mitochondrial DNA for large subunit rRNA, tRNA-Trp, tRNA-Gln.   111   3e-31  3
AJ133712|AJ133712.1 Rickettsia canada 23S rRNA gene, partial.      70   3e-30  5
U11018|U11018.1 Rickettsia prowazekii 23S rRNA and 5S rRNA genes, partial sequence, and 23S-5S internal transcribed spacer.    70   4e-30  5
dna update 2006. 4.13
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CP000010_1539(CP000010|pid:none) Burkholderia mallei ATCC 23344 ...    39   0.24
EU555094_1(EU555094|pid:none) Uncultured bacterium clone s206_Fo...    39   0.24
AE010299_1578(AE010299|pid:none) Methanosarcina acetivorans str....    39   0.24
CP000930_2260(CP000930|pid:none) Heliobacterium modesticaldum Ic...    37   0.91
CP000243_218(CP000243|pid:none) Escherichia coli UTI89, complete...    37   1.6
AE017220_2661(AE017220|pid:none) Salmonella enterica subsp. ente...    37   1.6
AM085146_10(AM085146|pid:none) Magnetospirillum gryphiswaldense ...    31   1.7
AE017197_194(AE017197|pid:none) Rickettsia typhi str. Wilmington...    30   3.2
protein update 2008.11.19
PSORT 

 psg: 0.82  gvh: 0.30  alm: 0.44  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.03
 nuc: 0.25  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 

	 60.0 %: nuclear
	 24.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: vesicles of secretory system

>> prediction for SHH465 is nuc
5' end seq. ID SHH465F
5' end seq. 
>SHH465F.Seq
AAATGTTTATAACGGATCTCTATGCAAATAAGAAAAAGGACGTACGAATGAACGAAAGGT
TATAGGGAAAATATAAAAAAGAGTTAGCAATAGCAATTGAAGATCTATAAATATCCGAAG
GGAGACCAAGAAAAAGAAGAAACGCAGTGAAGTGAAACATCTTAGTAACTGTAGGAAAAA
AAATCAAAAGAGATGCGGTAAGTAGTGGTGAGCGAAAGCCGAGGAGAGTAAAAGTAGACC
ATTAGAAGAAAACTGAAGAAACTAGGTGGAAATCCAAGGCAGAATAAGGTGAAAGTCCAG
TAAGGTAAGGGACTAATGGTAAAGAAGTAAAACGAAGAAAGGAGGAATTTGTTTGAAAAA
TGGGGGCCCACCCCCAAACTCAATATATGCTTATTTGACTGATAGTGAACAAGTACTGTG
AAGGAAAGATGAAAAGGAATATAGAAGTTATCTATTCAGTGAAAAGACCGTGAAATTGTA
AACATGATGAGCAGTTGGAGTTAAGTGACAACGTACCTTTTGTATAATGGGTCAGCGAGT
TAATAAATCGTAGCAAGCTTAAGGTAGTAACTATAGGCGCAGCGAAAGCGTATCTTAATN
NNNNNNNNN
Length of 5' end seq. 609
3' end seq. ID SHH465Z
3' end seq. 
>SHH465Z.Seq
NNNNNNNNNNGTGTTACATGAGCTGGGTTTAAAACGTCGTGAGACAGTTTGGTCCCTATC
TACTGTTAAAAACAAAAAAATTAAAATCCTTCCTTTAGTACGAGAGGACTGAGGTGGGTC
GATCACTGGTGTATTAATTATTATAACAATAGTACCGTTAAGTAGCTACATCGAAATATT
AATAATATATAGTATTATTAAGAGAGAACTGCTGAAAAAATATTAAGTAGGAAACTTATT
TTAGATTTTTTTATAGTCAGGTAAAAGATTATTACTTTGATAGGCTACATATAGAAATGA
ATAGTAATATAATATAAAAATTTGAAAAAATTTTTCCATTAATTCTATAATTAATGTGAT
CTTATTTATTAAGATTAGTAAAGTAGTACTAAATATGGATGACGTATTTTAAAATACATT
TTTTTCTTTATTTTTTTTTTATTAAATAAAATATATAGTAACATTAGCATTAGTAATAAT
ATAATATAATATTACAAAAAGCAAAATTTATNTTTNATCAAAT
Length of 3' end seq. 523
Connected seq. ID SHH465P
Connected seq. 
>SHH465P.Seq
AAATGTTTATAACGGATCTCTATGCAAATAAGAAAAAGGACGTACGAATGAACGAAAGGT
TATAGGGAAAATATAAAAAAGAGTTAGCAATAGCAATTGAAGATCTATAAATATCCGAAG
GGAGACCAAGAAAAAGAAGAAACGCAGTGAAGTGAAACATCTTAGTAACTGTAGGAAAAA
AAATCAAAAGAGATGCGGTAAGTAGTGGTGAGCGAAAGCCGAGGAGAGTAAAAGTAGACC
ATTAGAAGAAAACTGAAGAAACTAGGTGGAAATCCAAGGCAGAATAAGGTGAAAGTCCAG
TAAGGTAAGGGACTAATGGTAAAGAAGTAAAACGAAGAAAGGAGGAATTTGTTTGAAAAA
TGGGGGCCCACCCCCAAACTCAATATATGCTTATTTGACTGATAGTGAACAAGTACTGTG
AAGGAAAGATGAAAAGGAATATAGAAGTTATCTATTCAGTGAAAAGACCGTGAAATTGTA
AACATGATGAGCAGTTGGAGTTAAGTGACAACGTACCTTTTGTATAATGGGTCAGCGAGT
TAATAAATCGTAGCAAGCTTAAGGTAGTAACTATAGGCGCAGCGAAAGCGTATCTTAAT-
---------GTGTTACATGAGCTGGGTTTAAAACGTCGTGAGACAGTTTGGTCCCTATCT
ACTGTTAAAAACAAAAAAATTAAAATCCTTCCTTTAGTACGAGAGGACTGAGGTGGGTCG
ATCACTGGTGTATTAATTATTATAACAATAGTACCGTTAAGTAGCTACATCGAAATATTA
ATAATATATAGTATTATTAAGAGAGAACTGCTGAAAAAATATTAAGTAGGAAACTTATTT
TAGATTTTTTTATAGTCAGGTAAAAGATTATTACTTTGATAGGCTACATATAGAAATGAA
TAGTAATATAATATAAAAATTTGAAAAAATTTTTCCATTAATTCTATAATTAATGTGATC
TTATTTATTAAGATTAGTAAAGTAGTACTAAATATGGATGACGTATTTTAAAATACATTT
TTTTCTTTATTTTTTTTTTATTAAATAAAATATATAGTAACATTAGCATTAGTAATAATA
TAATATAATATTACAAAAAGCAAAATTTATNTTTNATCAAAT
Length of connected seq. 1112
Full length Seq ID -
Full length Seq. -
Length of full length seq. -