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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
SHG642
Library SH
(Link to library)
Clone ID SHG642
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11096-1|Contig-U12663-1
Original site URL
Representative seq. ID SHG642P
(Link to Original site)
Representative DNA sequence 
>SHG642 (SHG642Q) /CSM/SH/SHG6-B/SHG642Q.Seq.d/
ATCATTACATGTTCGATTGTAGAATATTTCACAGATTTTTTTTATTTTAAAATAAATTTC
CGCAATTCCAACAAATAAAAAGAAATTATAGAGATAAAATTTAATATAATATAATATAAA
AAAAAAAXXXXXXXXXXTTGAAAGCTCATAAAAAAGGTATTCGTCGTGCCGCTGTAAATA
CATTTGGTTACATTGCAAAAGCTATTGGTCCTCAAGAGGTATTGGCAACCCTATTAAACA
ATTTGAAAGTTCAAGATCGTCAAAACAGAGTTTGTACAACCGTTGCCATTGCCATTGTTG
CGGAAACTTGTGCACCTTATACCGTTTTACCAGGTCTAATCAATGAATATCGTATTCCAG
AGTTGAATGTTCAAAATGGTGTTTTGAAATCTTTATCTTTCCTCTTTGAATATATTGGCG
AAATGGGTAAAGACTATATTTACGCCGTAACTACCCTACTCGAAGATGCACTCATGGATA
GAGATGCTGTACATCGTCAAACCGCTTGCTCTGCAATTAAACATATTTCATTGGGTGTAA
TGGGTTTAGGTTGTGAAGATTCACTCACTCATTTACTCAATTACGTTTGGCCAAATGTTT
TCGAAACTTCTCCACATGTTATCAACGCTTTCTTAGAGGCCGTTGAA
sequence update 2002.10.25
Translated Amino Acid sequence 
slhvrl*nisqiffilk*isaiptnkkkl*r*nli*YNIKKK---

---LKAHKKGIRRAAVNTFGYIAKAIGPQEVLATLLNNLKVQDRQNRVCTTVAIAIVAET
CAPYTVLPGLINEYRIPELNVQNGVLKSLSFLFEYIGEMGKDYIYAVTTLLEDALMDRDA
VHRQTACSAIKHISLGVMGLGCEDSLTHLLNYVWPNVFETSPHVINAFLEAVE
Translated Amino Acid sequence (All Frames) 
Frame A:
iitcsiveyftdffyfkinfrnsnk*keiieikfnii*ykkk---

---LKAHKKGIRRAAVNTFGYIAKAIGPQEVLATLLNNLKVQDRQNRVCTTVAIAIVAET
CAPYTVLPGLINEYRIPELNVQNGVLKSLSFLFEYIGEMGKDYIYAVTTLLEDALMDRDA
VHRQTACSAIKHISLGVMGLGCEDSLTHLLNYVWPNVFETSPHVINAFLEAVE

Frame B:
slhvrl*nisqiffilk*isaiptnkkkl*r*nli*YNIKKK---

---*klikkvfvvpl*ihlvtlqkllvlkrywqpy*ti*kfkivktefvqplplpllrkl
vhlipfyqv*smnivfqs*mfkmvf*nlylsslnilakwvktiftp*lpyskmhswieml
yivkplalqlnifhwv*wv*vvkihsliysitfgqmfskllhmlstls*rpl

Frame C:
hymfdcrifhrfflf*nkfpqfqqikrnyrdki*ynii*kk---

---ess*krysscrckyiwlhcksywssrgignpikqfessrsskqslynrchchccgnl
ctlyrftrsnq*isysrvecskwcfeififpl*iywrng*rlylrrnyptrrcthg*rcc
tssnrllcn*tyfigcngfrl*rfthsftqlrlakcfrnfstcyqrflrgr*
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHA852 (VHA852Q) /CSM/VH/VHA8-C/VHA852Q.Seq.d/                       1011   0.0
SHG642 (SHG642Q) /CSM/SH/SHG6-B/SHG642Q.Seq.d/                       1011   0.0
SHA183 (SHA183Q) /CSM/SH/SHA1-D/SHA183Q.Seq.d/                       1011   0.0
AHM560 (AHM560Q) /CSM/AH/AHM5-C/AHM560Q.Seq.d/                       1011   0.0
AHD733 (AHD733Q) /CSM/AH/AHD7-B/AHD733Q.Seq.d/                       1011   0.0
AHD177 (AHD177Q) /CSM/AH/AHD1-D/AHD177Q.Seq.d/                       1011   0.0
AHA193 (AHA193Q) /CSM/AH/AHA1-D/AHA193Q.Seq.d/                       1011   0.0
CHM843 (CHM843Q) /CSM/CH/CHM8-B/CHM843Q.Seq.d/                       1003   0.0
CHM817 (CHM817Q) /CSM/CH/CHM8-A/CHM817Q.Seq.d/                       1003   0.0
SHE486 (SHE486Q) /CSM/SH/SHE4-D/SHE486Q.Seq.d/                        999   0.0
own update 2004. 5.14
Homology vs DNA 

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

AC117082|AC117082.2 Dictyostelium discoideum chromosome 2 map complement(6807709-6776860) strain AX4, complete sequence.  1011   0.0    3
AU312337|AU312337.1 Elaphe quadrivirgata cDNA, clone:Eq_aB_021_F03.   109   7e-44  3
DV664609|DV664609.1 CGN-1811 Pericarp Coffea canephora cDNA clone cccp22c1 5', mRNA sequence.   100   1e-32  5
DY611266|DY611266.1 IMMUNEF045822K24 POSSUM_01-C-POSSUM-IMMUNE-2KB Trichosurus vulpecula cDNA clone 1061021063254, mRNA sequence.    92   2e-31  3
CX303109|CX303109.1 C08027F07SK PhyRootSw1 Citrus sinensis cDNA clone C08027F07, mRNA sequence.    70   6e-31  3
BJ615493|BJ615493.1 Xenopus laevis cDNA clone:XL172e10, 5' end.    68   2e-26  4
BJ617934|BJ617934.1 Xenopus laevis cDNA clone:XL182p08, 5' end.    68   4e-26  4
DY031641|DY031641.1 zfi02-5ms1-e05 Zfi02 Zamia fischeri cDNA clone zfi02-5ms1-e05 5', mRNA sequence.   105   2e-25  2
CK804232|CK804232.1 AGENCOURT_19145222 NICHD_XGC_Te2 Xenopus laevis cDNA clone IMAGE:7207503 5', mRNA sequence.    68   3e-24  4
CJ466124|CJ466124.1 Macaca fascicularis mRNA, clone: QnpA-15448, 5' end, expressed in brain parietal lobe.    74   1e-23  4
dna update 2006. 4. 2
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AP008208_305(AP008208|pid:none) Oryza sativa (japonica cultivar-...   310   3e-83
AK221391_1(AK221391|pid:none) Arabidopsis thaliana mRNA for nucl...   308   1e-82
AE014134_132(AE014134|pid:none) Drosophila melanogaster chromoso...   302   6e-81
(O57683) RecName: Full=Splicing factor 3B subunit 1; AltName: Fu...   296   3e-79
(O75533) RecName: Full=Splicing factor 3B subunit 1; AltName: Fu...   296   3e-79
CP000583_21(CP000583|pid:none) Ostreococcus lucimarinus CCE9901 ...   290   2e-77
AM270010_46(AM270010|pid:none) Aspergillus niger contig An02c015...   283   3e-75
AP007159_186(AP007159|pid:none) Aspergillus oryzae RIB40 genomic...   283   3e-75
CU633899_368(CU633899|pid:none) Podospora anserina genomic DNA c...   280   2e-74
(Q10178) RecName: Full=U2 snRNP component prp10;  &CU329670_1789...   272   7e-72
protein update 2009. 4.19
PSORT 

 psg: 0.51  gvh: 0.36  alm: 0.36  top: 0.53  tms: 0.00  mit: 0.32  mip: 0.09
 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 

	 44.0 %: nuclear
	 28.0 %: cytoplasmic
	 16.0 %: mitochondrial
	  8.0 %: vesicles of secretory system
	  4.0 %: cytoskeletal

>> prediction for SHG642 is nuc
5' end seq. ID SHG642F
5' end seq. 
>SHG642F.Seq
ATCATTACATGTTCGATTGTAGAATATTTCACAGATTTTTTTTATTTTAAAATAAATTTC
CGCAATTCCAACAAATAAAAAGAAATTATAGAGATAAAATTTAATATAATATAATATAAA
AAAAAAANNNNNNNNNN
Length of 5' end seq. 137
3' end seq. ID SHG642Z
3' end seq. 
>SHG642Z.Seq
NNNNNNNNNNTTGAAAGCTCATAAAAAAGGTATTCGTCGTGCCGCTGTAAATACATTTGG
TTACATTGCAAAAGCTATTGGTCCTCAAGAGGTATTGGCAACCCTATTAAACAATTTGAA
AGTTCAAGATCGTCAAAACAGAGTTTGTACAACCGTTGCCATTGCCATTGTTGCGGAAAC
TTGTGCACCTTATACCGTTTTACCAGGTCTAATCAATGAATATCGTATTCCAGAGTTGAA
TGTTCAAAATGGTGTTTTGAAATCTTTATCTTTCCTCTTTGAATATATTGGCGAAATGGG
TAAAGACTATATTTACGCCGTAACTACCCTACTCGAAGATGCACTCATGGATAGAGATGC
TGTACATCGTCAAACCGCTTGCTCTGCAATTAAACATATTTCATTGGGTGTAATGGGTTT
AGGTTGTGAAGATTCACTCACTCATTTACTCAATTACGTTTGGCCAAATGTTTTCGAAAC
TTCTCCACATGTTATCAACGCTTTCTTAGAGGCCGTTGAA
Length of 3' end seq. 520
Connected seq. ID SHG642P
Connected seq. 
>SHG642P.Seq
ATCATTACATGTTCGATTGTAGAATATTTCACAGATTTTTTTTATTTTAAAATAAATTTC
CGCAATTCCAACAAATAAAAAGAAATTATAGAGATAAAATTTAATATAATATAATATAAA
AAAAAAA----------TTGAAAGCTCATAAAAAAGGTATTCGTCGTGCCGCTGTAAATA
CATTTGGTTACATTGCAAAAGCTATTGGTCCTCAAGAGGTATTGGCAACCCTATTAAACA
ATTTGAAAGTTCAAGATCGTCAAAACAGAGTTTGTACAACCGTTGCCATTGCCATTGTTG
CGGAAACTTGTGCACCTTATACCGTTTTACCAGGTCTAATCAATGAATATCGTATTCCAG
AGTTGAATGTTCAAAATGGTGTTTTGAAATCTTTATCTTTCCTCTTTGAATATATTGGCG
AAATGGGTAAAGACTATATTTACGCCGTAACTACCCTACTCGAAGATGCACTCATGGATA
GAGATGCTGTACATCGTCAAACCGCTTGCTCTGCAATTAAACATATTTCATTGGGTGTAA
TGGGTTTAGGTTGTGAAGATTCACTCACTCATTTACTCAATTACGTTTGGCCAAATGTTT
TCGAAACTTCTCCACATGTTATCAACGCTTTCTTAGAGGCCGTTGAA
Length of connected seq. 637
Full length Seq ID -
Full length Seq. -
Length of full length seq. -