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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
SHF212
Library SH
(Link to library)
Clone ID SHF212
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16288-1|Contig-U16338-1
Original site URL
Representative seq. ID SHF212P
(Link to Original site)
Representative DNA sequence 
>SHF212 (SHF212Q) /CSM/SH/SHF2-A/SHF212Q.Seq.d/
AAATTCATTTGTATATATATAACTTCACACACCTCAAAACAATTTATTTGATTATTTAAA
TATTTAAATAACATTTTAAAAATAGATTGTGTGTGCTTTTTATTATATAAAAATAATTTA
AATTTTATATAAAAAAAAAAAATCAAAAAAAAAAXXXXXXXXXXCAAATGTATCTGTTAA
AATGGTACTTTCCGATCCAAAATTATTAAAATATGAATGTTCAATCCCAATCGATGTACT
CCCATACGGTGAACCACAACAATGTTATGTTGCCATTCGTTACATTCCTGCCAATGGTTA
TCCATTATGTTCATTCAGTAATGCCNTCAAATTCAAAGTTAAAGAAGTCGATCCATCCAC
TGGTGAACTCGATGAACCAGGCTATGATGATCAATACAGTTTAGAGAGATTGGAAATCGT
TCCAAAAGATTTCCTCAATAGAGCTTTCGTTGGTAACTTTTCCGAGGAATGGAAGAAAAT
GTCTGAAGATACCCAATTAGTTCAAACCTTTTCTTTAGTTGGTGTTAAATCTATCGATGA
AGCTGTAAAACAAATCATTAAAACATTAGGTATGGCCCCTGCTGAAAAATCT
sequence update 2002.10.25
Translated Amino Acid sequence 
ihlyiynfthlktiylii*ifk*hfknrlcvlfii*k*FKFYIKKKNQKK---

---NVSVKMVLSDPKLLKYECSIPIDVLPYGEPQQCYVAIRYIPANGYPLCSFSNAXKFK
VKEVDPSTGELDEPGYDDQYSLERLEIVPKDFLNRAFVGNFSEEWKKMSEDTQLVQTFSL
VGVKSIDEAVKQIIKTLGMAPAEKS
Translated Amino Acid sequence (All Frames) 
Frame A:
kficiyitshtskqfi*lfkylnnilkidcvcfllyknnlnfi*kkkikkk---

---qmyllkwyfpiqny*nmnvqsqsmyshtvnhnnvmlpfvtflpmvihyvhsvmpsns
klkksihplvnsmnqammintv*rdwksfqkissielslvtfprngrkclkipn*fkpfl
*lvlnlsmkl*nkslkh*vwpllkn

Frame B:
nsfvyi*lhtpqnnlfdylni*itf*k*ivcafyyikii*ilykkkkskkk---

---kcic*ngtfrskiiki*mfnpnrctpir*tttmlcchslhscqwlsimfiq*cxqiq
s*rsrsihw*tr*trl**siqfreignrskrfpq*sfrw*lfrgmeenv*rypissnlff
swc*iyr*scktnh*nirygpc*ki

Frame C:
ihlyiynfthlktiylii*ifk*hfknrlcvlfii*k*FKFYIKKKNQKK---

---NVSVKMVLSDPKLLKYECSIPIDVLPYGEPQQCYVAIRYIPANGYPLCSFSNAXKFK
VKEVDPSTGELDEPGYDDQYSLERLEIVPKDFLNRAFVGNFSEEWKKMSEDTQLVQTFSL
VGVKSIDEAVKQIIKTLGMAPAEKS
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHF212 (SHF212Q) /CSM/SH/SHF2-A/SHF212Q.Seq.d/                        842   0.0
VHL633 (VHL633Q) /CSM/VH/VHL6-B/VHL633Q.Seq.d/                        837   0.0
VHP318 (VHP318Q) /CSM/VH/VHP3-A/VHP318Q.Seq.d/                        835   0.0
VHJ794 (VHJ794Q) /CSM/VH/VHJ7-D/VHJ794Q.Seq.d/                        835   0.0
VHB433 (VHB433Q) /CSM/VH/VHB4-B/VHB433Q.Seq.d/                        835   0.0
SHD188 (SHD188Q) /CSM/SH/SHD1-D/SHD188Q.Seq.d/                        835   0.0
CHQ207 (CHQ207Q) /CSM/CH/CHQ2-A/CHQ207Q.Seq.d/                        835   0.0
AHO515 (AHO515Q) /CSM/AH/AHO5-A/AHO515Q.Seq.d/                        835   0.0
AHN272 (AHN272Q) /CSM/AH/AHN2-C/AHN272Q.Seq.d/                        835   0.0
AHI226 (AHI226Q) /CSM/AH/AHI2-B/AHI226Q.Seq.d/                        835   0.0
own update 2002.12. 5
Homology vs DNA 

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

AF288092|AF288092.1 Naegleria gruberi mitochondrial DNA, complete genome.    42   7e-04  6
CT301628|CT301628.1 Sus scrofa genomic clone CH242-214A22, genomic survey sequence.    40   8e-04  2
AF295546|AF295546.1 Malawimonas jakobiformis mitochondrial DNA, complete genome.    46   0.003  5
AC182722|AC182722.1 Populus trichocarpa clone Pop1-92L17, WORKING DRAFT SEQUENCE.    36   0.010  2
AX251286|AX251286.1 Sequence 254 from Patent WO0168912.            36   0.011  2
BD452807|BD452807.1 Diagnosis of Diseases Associated with tumor suppressor genes and oncogenes.    36   0.011  2
BX293998|BX293998.6 Zebrafish DNA sequence from clone CH211-257B22 in linkage group 20.    46   0.014  5
CR407551|CR407551.12 Zebrafish DNA sequence *** SEQUENCING IN PROGRESS *** from clone.    42   0.021  4
AF404306|AF404306.1 Rhizophydium sp. 136 mitochondrion, complete genome.    42   0.031  4
AC156865|AC156865.2 Bos taurus clone CH240-64L7, WORKING DRAFT SEQUENCE, 21 unordered pieces.    38   0.035  2
dna update 2006. 3.12
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q8H852) RecName: Full=Coatomer subunit gamma-1; AltName: Full=G...   107   2e-22
(Q4AEF8) RecName: Full=Coatomer subunit gamma; AltName: Full=Gam...   105   1e-21
(P53620) RecName: Full=Coatomer subunit gamma; AltName: Full=Gam...   104   2e-21
S33957(S33957;S27017;S33958) coat protein gamma-COP - bovine (fr...   104   2e-21
(Q9QZE5) RecName: Full=Coatomer subunit gamma; AltName: Full=Gam...   103   3e-21
AK077461_1(AK077461|pid:none) Mus musculus 8 days embryo whole b...   103   3e-21
BC008553_1(BC008553|pid:none) Mus musculus coatomer protein comp...   103   3e-21
BT045480_1(BT045480|pid:none) Salmo salar clone ssal-rgf-522-272...   103   4e-21
(Q9I8E6) RecName: Full=Coatomer subunit gamma-2; AltName: Full=G...   102   1e-20
BC020498_1(BC020498|pid:none) Homo sapiens coatomer protein comp...   102   1e-20
protein update 2009. 4.18
PSORT 

 psg: 0.64  gvh: 0.34  alm: 0.45  top: 0.53  tms: 0.00  mit: 0.33  mip: 0.00
 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 

	 32.0 %: cytoplasmic
	 28.0 %: nuclear
	 20.0 %: mitochondrial
	 12.0 %: cytoskeletal
	  4.0 %: extracellular, including cell wall
	  4.0 %: peroxisomal

>> prediction for SHF212 is cyt
5' end seq. ID SHF212F
5' end seq. 
>SHF212F.Seq
AAATTCATTTGTATATATATAACTTCACACACCTCAAAACAATTTATTTGATTATTTAAA
TATTTAAATAACATTTTAAAAATAGATTGTGTGTGCTTTTTATTATATAAAAATAATTTA
AATTTTATATAAAAAAAAAAAATCAAAAAAAAAANNNNNNNNNN
Length of 5' end seq. 164
3' end seq. ID SHF212Z
3' end seq. 
>SHF212Z.Seq
NNNNNNNNNNCAAATGTATCTGTTAAAATGGTACTTTCCGATCCAAAATTATTAAAATAT
GAATGTTCAATCCCAATCGATGTACTCCCATACGGTGAACCACAACAATGTTATGTTGCC
ATTCGTTACATTCCTGCCAATGGTTATCCATTATGTTCATTCAGTAATGCCNTCAAATTC
AAAGTTAAAGAAGTCGATCCATCCACTGGTGAACTCGATGAACCAGGCTATGATGATCAA
TACAGTTTAGAGAGATTGGAAATCGTTCCAAAAGATTTCCTCAATAGAGCTTTCGTTGGT
AACTTTTCCGAGGAATGGAAGAAAATGTCTGAAGATACCCAATTAGTTCAAACCTTTTCT
TTAGTTGGTGTTAAATCTATCGATGAAGCTGTAAAACAAATCATTAAAACATTAGGTATG
GCCCCTGCTGAAAAATCT
Length of 3' end seq. 438
Connected seq. ID SHF212P
Connected seq. 
>SHF212P.Seq
AAATTCATTTGTATATATATAACTTCACACACCTCAAAACAATTTATTTGATTATTTAAA
TATTTAAATAACATTTTAAAAATAGATTGTGTGTGCTTTTTATTATATAAAAATAATTTA
AATTTTATATAAAAAAAAAAAATCAAAAAAAAAA----------CAAATGTATCTGTTAA
AATGGTACTTTCCGATCCAAAATTATTAAAATATGAATGTTCAATCCCAATCGATGTACT
CCCATACGGTGAACCACAACAATGTTATGTTGCCATTCGTTACATTCCTGCCAATGGTTA
TCCATTATGTTCATTCAGTAATGCCNTCAAATTCAAAGTTAAAGAAGTCGATCCATCCAC
TGGTGAACTCGATGAACCAGGCTATGATGATCAATACAGTTTAGAGAGATTGGAAATCGT
TCCAAAAGATTTCCTCAATAGAGCTTTCGTTGGTAACTTTTCCGAGGAATGGAAGAAAAT
GTCTGAAGATACCCAATTAGTTCAAACCTTTTCTTTAGTTGGTGTTAAATCTATCGATGA
AGCTGTAAAACAAATCATTAAAACATTAGGTATGGCCCCTGCTGAAAAATCT
Length of connected seq. 582
Full length Seq ID -
Full length Seq. -
Length of full length seq. -