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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
SHB481
Library SH
(Link to library)
Clone ID SHB481
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15702-1|Contig-U16326-1
Original site URL
Representative seq. ID SHB481P
(Link to Original site)
Representative DNA sequence 
>SHB481 (SHB481Q) /CSM/SH/SHB4-D/SHB481Q.Seq.d/
ATAAATAAACTTATTTATTTAACTTTTTTACTTGATAACTTTACTTTTTACTTTACTTTT
ACTTTACTTTTACTTTACTTTACTTTACTTTTACTTTTACTTTTACTTTTTCACACACAA
AATCTTTTTTTTTTTTNNCXXXXXXXXXXTTAACAGATTCTTTCCACAAGAGTGGCTNTG
CTTTAGAATGTGATATCTTAAGAATGATGTTCCAAGTCGTTGAGAATGGTGTTGTTANNA
TTCCACTCTNTGATCCACAACAAGCAAANTTCCCTTCAAACTNTGAATATGTCAAAGGAA
TCGNNGTCACTTTCCTTTCAGCTTCTCCAAATGTCTCAAGACCACAAATCCAGGCNTTCG
TCA
sequence update 2002.10.25
Translated Amino Acid sequence 
INKLIYLTFLLDNFTFYFTFTLLLLYFTLLLLLLLLFHTQNLFFFX---

---LTDSFHKSGXALECDILRMMFQVVENGVVXIPLXDPQQAXFPSNXEYVKGIXVTFLS
ASPNVSRPQIQAFV
Translated Amino Acid sequence (All Frames) 
Frame A:
INKLIYLTFLLDNFTFYFTFTLLLLYFTLLLLLLLLFHTQNLFFFX---

---LTDSFHKSGXALECDILRMMFQVVENGVVXIPLXDPQQAXFPSNXEYVKGIXVTFLS
ASPNVSRPQIQAFV

Frame B:
*inlfi*lfylitllftllllyfyftllyfyfyfyffthkiffffx---

---*qilstrvaxl*nvis*e*cskslrmvllxfhsxihnkqxslqtxnmskesxslsfq
llqmsqdhksrxss

Frame C:
k*tylfnfft**lyfllyfyftftllyftftftftfshtksfffx---

---nrffpqewlcfrm*ylkndvpsr*ewccxxstl*sttskxpfkl*icqrnrxhfpfs
fskclkttnpgxr
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

SHB481 (SHB481Q) /CSM/SH/SHB4-D/SHB481Q.Seq.d/                        371   e-102
VHO127 (VHO127Q) /CSM/VH/VHO1-B/VHO127Q.Seq.d/                        363   1e-99
VHH616 (VHH616Q) /CSM/VH/VHH6-A/VHH616Q.Seq.d/                        363   1e-99
VHA825 (VHA825Q) /CSM/VH/VHA8-B/VHA825Q.Seq.d/                        363   1e-99
SHK182 (SHK182Q) /CSM/SH/SHK1-D/SHK182Q.Seq.d/                        363   1e-99
SHD285 (SHD285Q) /CSM/SH/SHD2-D/SHD285Q.Seq.d/                        363   1e-99
SHA385 (SHA385Q) /CSM/SH/SHA3-D/SHA385Q.Seq.d/                        363   1e-99
CHM288 (CHM288Q) /CSM/CH/CHM2-D/CHM288Q.Seq.d/                        363   1e-99
CHL829 (CHL829Q) /CSM/CH/CHL8-B/CHL829Q.Seq.d/                        363   1e-99
CHL562 (CHL562Q) /CSM/CH/CHL5-C/CHL562Q.Seq.d/                        363   1e-99
own update 2004.12.25
Homology vs DNA 

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

AZ194193|AZ194193.1 SP_1025_B2_D01_SP6E Strongylocentrotus purpuratus, purple seagenomic clone Plate=1025 Col=2 Row=H, genomic survey sequence.    44   1.9    1
DV474787|DV474787.1 5484_C09_E18ZE5_075 Brachypodium distachyon developing spike EST library Brachypodium distachyon cDNA clone 5484_C09_E18, mRNA sequence.    42   7.6    1
DV472775|DV472775.1 5438_E03_I06Z_023 Brachypodium distachyon callus EST library Brachypodium distachyon cDNA clone 5438_E03_I06, mRNA sequence.    42   7.6    1
DV471757|DV471757.1 5257_H11_P21Z_081 Brachypodium distachyon callus EST library Brachypodium distachyon cDNA clone 5257_H11_P21, mRNA sequence.    42   7.6    1
DV474787|DV474787.1 5484_C09_E18ZE5_075 Brachypodium distachyon developing spike EST library Brachypodium distachyon cDNA clone 5484_C09_E18, mRNA sequence.    42   7.6    1
DV472775|DV472775.1 5438_E03_I06Z_023 Brachypodium distachyon callus EST library Brachypodium distachyon cDNA clone 5438_E03_I06, mRNA sequence.    42   7.6    1
DV471757|DV471757.1 5257_H11_P21Z_081 Brachypodium distachyon callus EST library Brachypodium distachyon cDNA clone 5257_H11_P21, mRNA sequence.    42   7.6    1
AW708337|AW708337.1 c6a07ne.r1 Neurospora crassa evening cDNA library Neurospora crassa cDNA clone c6a07ne 3', mRNA sequence.    42   7.6    1
CL013631|CL013631.1 ZMMBBb0541G02r ZMMBBb (HindIII) Zea mays subsp. mays genomic clone ZMMBBb0541G02 3', genomic survey sequence.    42   7.6    1
CC974215|CC974215.1 ZUAFX67TV ZM_3.0_4.0_KB Zea mays genomic clone ZMMBPa0055K14, genomic survey sequence.    42   7.6    1
dna update 2005.12.24
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

D45029(D45029;JU0046)crm1+ protein - fission yeast (Schizosaccha...    50   2e-05
AC144806_11(AC144806|pid:none) Medicago truncatula clone mth2-34...    48   1e-04
AF208056_1(AF208056|pid:none) Schizosaccharomyces pombe crm1 pro...    47   2e-04
AB027496_1(AB027496|pid:none) Schizosaccharomyces pombe gene for...    47   2e-04
AM472935_1(AM472935|pid:none) Vitis vinifera contig VV78X202628....    46   3e-04
AE017347_172(AE017347|pid:none) Cryptococcus neoformans var. neo...    44   0.001
AC146575_10(AC146575|pid:none) Medicago truncatula clone mth2-14...    44   0.002
AK226898_1(AK226898|pid:none) Arabidopsis thaliana mRNA for expo...    43   0.003
AF367278_1(AF367278|pid:none) Arabidopsis thaliana AT3g03110/T17...    43   0.003
AC012328_20(AC012328|pid:none) Arabidopsis thaliana chromosome I...    43   0.003
protein update 2009. 4.15
PSORT 

 psg: 0.95  gvh: 0.72  alm: 0.43  top: 0.47  tms: 0.00  mit: 0.30  mip: 0.00
 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 

	 48.0 %: extracellular, including cell wall
	 20.0 %: cytoplasmic
	 12.0 %: mitochondrial
	  8.0 %: vacuolar
	  4.0 %: cytoskeletal
	  4.0 %: nuclear
	  4.0 %: endoplasmic reticulum

>> prediction for SHB481 is exc
5' end seq. ID SHB481F
5' end seq. 
>SHB481F.Seq
ATAAATAAACTTATTTATTTAACTTTTTTACTTGATAACTTTACTTTTTACTTTACTTTT
ACTTTACTTTTACTTTACTTTACTTTACTTTTACTTTTACTTTTACTTTTTCACACACAA
AATCTTTTTTTTTTTTNNCNNNNNNNNNN
Length of 5' end seq. 149
3' end seq. ID SHB481Z
3' end seq. 
>SHB481Z.Seq
NNNNNNNNNNTTAACAGATTCTTTCCACAAGAGTGGCTNTGCTTTAGAATGTGATATCTT
AAGAATGATGTTCCAAGTCGTTGAGAATGGTGTTGTTANNATTCCACTCTNTGATCCACA
ACAAGCAAANTTCCCTTCAAACTNTGAATATGTCAAAGGAATCGNNGTCACTTTCCTTTC
AGCTTCTCCAAATGTCTCAAGACCACAAATCCAGGCNTTCGTCA
Length of 3' end seq. 224
Connected seq. ID SHB481P
Connected seq. 
>SHB481P.Seq
ATAAATAAACTTATTTATTTAACTTTTTTACTTGATAACTTTACTTTTTACTTTACTTTT
ACTTTACTTTTACTTTACTTTACTTTACTTTTACTTTTACTTTTACTTTTTCACACACAA
AATCTTTTTTTTTTTTNNC----------TTAACAGATTCTTTCCACAAGAGTGGCTNTG
CTTTAGAATGTGATATCTTAAGAATGATGTTCCAAGTCGTTGAGAATGGTGTTGTTANNA
TTCCACTCTNTGATCCACAACAAGCAAANTTCCCTTCAAACTNTGAATATGTCAAAGGAA
TCGNNGTCACTTTCCTTTCAGCTTCTCCAAATGTCTCAAGACCACAAATCCAGGCNTTCG
TCA
Length of connected seq. 353
Full length Seq ID -
Full length Seq. -
Length of full length seq. -