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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
SHF354
Library SH
(Link to library)
Clone ID SHF354
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13024-1
Original site URL
Representative seq. ID
(Link to Original site)
Representative DNA sequence 
>SHF354 (SHF354Q) /CSM/SH/SHF3-C/SHF354Q.Seq.d/
XXXXXXXXXXCAATTGAATCAAAAGTTATTGATTTCACTCATGGTACCATTCAAGGTGTT
GGTGNTCTTAAATGTGGTACTTGTAACTTTGCCAATAAGATCGCTGCTAACCTCAACGTT
GTTGGTAACGTTAAAATGGCNGCAACTGCAACTGTCTATGCAAACATTGATGCTTTAATG
TCAATCACCACNTCAACCCAAACNTCAATCTCTCAATCATCAACCAAGACTGTCAACGGT
AAGGCCACCACTCAATCATCATCAAGCTCATCATCATCCATCTCTAAACAATTCGTTCCA
ATGATCGTTTGTTCAGGTACTGCTGATGTTGCTGGTAACCTCAATGTCGTTGCCTCAGAA
GCCAATCAAGCTAAAATTGCCTCTGGTACTGTATTCAAATTCATCTCAGCCCCAGTTGTT
AAAGGTAATGTCTCCTCAGTTAGCTGTCTCACCTCAAGCACTGCTGCTGCTGCTCAACAA
GCTGCCGGTGCTGCTGCTGCTGCTGCCCCAAAAGCTGCTATGGCTGCTGCCTCTAAAGTT
TGGTCAATTGTAAATTCACCATGTAACTGTGAATGTGGATTGAAGAGATTATAAATTGAT
TCAACTCCTCCTCTCCAATGACAATAAATTAAAATAATACAACTCATTCTTATTTTTCTT
TATTCTAACCAATGTATTTGTCAATTAACTTATTAACTTTTTA
sequence update 2002. 9.10
Translated Amino Acid sequence 
---IESKVIDFTHGTIQGVGXLKCGTCNFANKIAANLNVVGNVKMAATATVYANIDALMS
ITTSTQTSISQSSTKTVNGKATTQSSSSSSSSISKQFVPMIVCSGTADVAGNLNVVASEA
NQAKIASGTVFKFISAPVVKGNVSSVSCLTSSTAAAAQQAAGAAAAAAPKAAMAAASKVW
SIVNSPCNCECGLKRL*idstpplq*q*ikiiqliliflysnqcicqlty*lf
Translated Amino Acid sequence (All Frames) 
Frame A:
---n*iksy*fhswyhsrcwxs*mwyl*lcq*drc*pqrcw*r*ngxncnclckh*cfnv
nhhxnpnxnlsiinqdcqr*ghhsiiikliiihl*tirsndrlfryc*ccw*pqcrclrs
qss*nclwyciqihlspsc*r*clls*lshlkhccccstscrccccccpkscygccl*sl
vnckftm*l*mwieeiin*fnssspmtin*nntthsyfslf*pmylsinlltf


Frame B:
---IESKVIDFTHGTIQGVGXLKCGTCNFANKIAANLNVVGNVKMAATATVYANIDALMS
ITTSTQTSISQSSTKTVNGKATTQSSSSSSSSISKQFVPMIVCSGTADVAGNLNVVASEA
NQAKIASGTVFKFISAPVVKGNVSSVSCLTSSTAAAAQQAAGAAAAAAPKAAMAAASKVW
SIVNSPCNCECGLKRL*idstpplq*q*ikiiqliliflysnqcicqlty*lf


Frame C:
---lnqkllislmvpfkvlvxlnvvlvtlpirslltstllvtlkwxqlqlsmqtlml*cq
spxqpkxqslnhqprlstvrpplnhhqahhhpslnnsfq*sfvqvllmllvtsmslpqkp
iklklplvlysnssqpqllkvmspqlavspqalllllnklpvlllllpqkllwllplkfg
ql*ihhvtvnvd*rdykliqlllsndnklk*ynsflfffiltnvfvn*linfl
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHF354 (SHF354Q) /CSM/SH/SHF3-C/SHF354Q.Seq.d/                        866   0.0
SLE342 (SLE342Q) /CSM/SL/SLE3-B/SLE342Q.Seq.d/                        850   0.0
SLA101 (SLA101Q) /CSM/SL/SLA1-A/SLA101Q.Seq.d/                        850   0.0
SHL563 (SHL563Q) /CSM/SH/SHL5-C/SHL563Q.Seq.d/                        850   0.0
SHL307 (SHL307Q) /CSM/SH/SHL3-A/SHL307Q.Seq.d/                        850   0.0
SHL203 (SHL203Q) /CSM/SH/SHL2-A/SHL203Q.Seq.d/                        850   0.0
SHK865 (SHK865Q) /CSM/SH/SHK8-C/SHK865Q.Seq.d/                        850   0.0
SHK762 (SHK762Q) /CSM/SH/SHK7-C/SHK762Q.Seq.d/                        850   0.0
SHK536 (SHK536Q) /CSM/SH/SHK5-B/SHK536Q.Seq.d/                        850   0.0
SHG713 (SHG713Q) /CSM/SH/SHG7-A/SHG713Q.Seq.d/                        850   0.0
own update 2002.12. 5
Homology vs DNA 

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

U83087|U83087.1 Dictyostelium discoideum rsc12 mRNA, partial cds.   850   0.0    2
AJ297856|AJ297856.1 Lucilia sericata partial bcd gene for bicoid protein.    50   0.068  1
AC162431|AC162431.1 Papio hamadryas clone RP41-121N17, WORKING DRAFT SEQUENCE.    48   0.27   1
AC156169|AC156169.2 Bos taurus clone CH240-50N13, *** SEQUENCING IN PROGRESS ***, 60 unordered pieces.    48   0.27   1
AC148223|AC148223.1 Colobus guereza clone CH272-19E23, WORKING DRAFT SEQUENCE, 4 ordered pieces.    48   0.27   1
AC127176|AC127176.3 Rattus norvegicus clone CH230-267P11, *** SEQUENCING IN PROGRESS ***, 1 ordered piece.    48   0.27   1
AL395211|AL395211.1 T7 end of clone AR0AA022B11 of library AR0AA from strain CBS 732 of Zygosaccharomyces rouxii.    48   0.27   1
AC110319|AC110319.5 Rattus norvegicus clone CH230-234D19, WORKING DRAFT SEQUENCE, 2 unordered pieces.    48   0.27   1
AL393003|AL393003.1 T7 end of clone AR0AA008B11 of library AR0AA from strain CBS 732 of Zygosaccharomyces rouxii.    48   0.27   1
AC164878|AC164878.2 Mus musculus BAC clone RP23-364G24 from chromosome 13, complete sequence.    48   0.27   1
dna update 2006. 3.15
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

U83087_1(U83087|pid:none) Dictyostelium discoideum rsc12 mRNA, p...   261   1e-68
AY530539_1(AY530539|pid:none) Mimulus ringens deficiens (DEF) mR...    34   4.8
AY524011_1(AY524011|pid:none) Paulownia tomentosa deficiens (DEF...    33   6.3
protein update 2009. 1.16
PSORT 

 psg: 0.75  gvh: 0.38  alm: 0.41  top: 0.53  tms: 0.00  mit: 0.22  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 

	 40.0 %: cytoplasmic
	 36.0 %: nuclear
	 20.0 %: cytoskeletal
	  4.0 %: mitochondrial

>> prediction for SHF354 is cyt
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID SHF354Z
3' end seq. 
>SHF354Z.Seq
NNNNNNNNNNCAATTGAATCAAAAGTTATTGATTTCACTCATGGTACCATTCAAGGTGTT
GGTGNTCTTAAATGTGGTACTTGTAACTTTGCCAATAAGATCGCTGCTAACCTCAACGTT
GTTGGTAACGTTAAAATGGCNGCAACTGCAACTGTCTATGCAAACATTGATGCTTTAATG
TCAATCACCACNTCAACCCAAACNTCAATCTCTCAATCATCAACCAAGACTGTCAACGGT
AAGGCCACCACTCAATCATCATCAAGCTCATCATCATCCATCTCTAAACAATTCGTTCCA
ATGATCGTTTGTTCAGGTACTGCTGATGTTGCTGGTAACCTCAATGTCGTTGCCTCAGAA
GCCAATCAAGCTAAAATTGCCTCTGGTACTGTATTCAAATTCATCTCAGCCCCAGTTGTT
AAAGGTAATGTCTCCTCAGTTAGCTGTCTCACCTCAAGCACTGCTGCTGCTGCTCAACAA
GCTGCCGGTGCTGCTGCTGCTGCTGCCCCAAAAGCTGCTATGGCTGCTGCCTCTAAAGTT
TGGTCAATTGTAAATTCACCATGTAACTGTGAATGTGGATTGAAGAGATTATAAATTGAT
TCAACTCCTCCTCTCCAATGACAATAAATTAAAATAATACAACTCATTCTTATTTTTCTT
TATTCTAACCAATGTATTTGTCAATTAACTTATTAACTTTTTA
Length of 3' end seq. 703
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -