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Dicty_cDB
Contig List | Clone List | cDNA Library List
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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
SHD216
Library SH
(Link to library)
Clone ID SHD216
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16423-1
Original site URL
Representative seq. ID
(Link to Original site)
Representative DNA sequence 
>SHD216 (SHD216Q) /CSM/SH/SHD2-A/SHD216Q.Seq.d/
XXXXXXXXXXATTTTCGTTGAAACTAAACGTTCTTGTGATACTCTTACCTACTTTTTAAA
TCAAAGAAATTTCCCAACTACCTGTATTCATGGTGATTTAACTCAACCAGAAAGAGAAAA
TGCACTTCAATCTTTCCGTTCTTTTGCAACTCCATTCTTAGTAGCAACTGATATTGCATC
AAGAGGTCTCCACATCGGTAATGTTAATTTGGTTATCAATTTCGACTTGCCTACCGACAT
ACATATCTACGTTCATCGTATTGGTAGAACCGGAAGAGCAGGAAAAAAAGGTTTAGCAAT
TTCCTTCTTCAATGAAAAGAATAAACCAGTTGGTGCTGAACTTTTGAAATTAATGAAAGC
TTCAAATCAAGATATTCCAGATTGGTTTGAAAAGATGGTACACAATCTCCGTATGTCTAA
AGGTCCATCAAACTCAAAATCAAATAGTCCATTCAACAAATCTTACAATAGTCATCACAA
TAGAGATGATAACCGTGGTGGTTATGGTGGTGGTGGTGGTGGTAATGGAGGTTACAGTAA
CAACCGTAATGATAGAAGAGAAGATAAATCAGATTACTCAATGCATCACCCATACTTTAG
CAACAATGGTGGTTCATATAATTAAACATTCACCTCATGTCATTCGTTTAATAAAAAATA
ATAAATCCATTTTAATTCAATATNNAATTAAAATCA
sequence update 2002. 9.10
Translated Amino Acid sequence 
---FVETKRSCDTLTYFLNQRNFPTTCIHGDLTQPERENALQSFRSFATPFLVATDIASR
GLHIGNVNLVINFDLPTDIHIYVHRIGRTGRAGKKGLAISFFNEKNKPVGAELLKLMKAS
NQDIPDWFEKMVHNLRMSKGPSNSKSNSPFNKSYNSHHNRDDNRGGYGGGGGGNGGYSNN
RNDRREDKSDYSMHHPYFSNNGGSYN*tftschsfnkk**ihfnsixn*n
Translated Amino Acid sequence (All Frames) 
Frame A:
---fslklnvlvillptf*ikeisqlpvfmvi*lnqkekmhfnlsvllqlhs**qlilhq
evstsvmliwlsistclptyistfivlvepeeqekkv*qfpssmkrinqlvlnf*n**kl
qikifqiglkrwytisvclkvhqtqnqivhstnltivitiemitvvvmvvvvvvmevtvt
tvmieekinqitqcithtlatmvvhiikhsphvirliknnksiliqyxiki


Frame B:
---fr*n*tfl*ysyllfkskkfpnylysw*fnstrkrkctsifpffcnsilssn*ycik
rsphr*c*fgyqfrlayrhtylrssyw*nrksrkkrfsnfllq*ke*tswc*tfeinesf
ksrysrlv*kdgtqspyv*rsiklkik*siqqilq*ssq*r**pwwlwwwwww*wrlq*q
p***krr*irllnaspil*qqwwfi*lnihlmsfv**kiinpf*fnxxlks


Frame C:
---FVETKRSCDTLTYFLNQRNFPTTCIHGDLTQPERENALQSFRSFATPFLVATDIASR
GLHIGNVNLVINFDLPTDIHIYVHRIGRTGRAGKKGLAISFFNEKNKPVGAELLKLMKAS
NQDIPDWFEKMVHNLRMSKGPSNSKSNSPFNKSYNSHHNRDDNRGGYGGGGGGNGGYSNN
RNDRREDKSDYSMHHPYFSNNGGSYN*tftschsfnkk**ihfnsixn*n
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHQ404 (VHQ404Q) /CSM/VH/VHQ4-A/VHQ404Q.Seq.d/                        918   0.0
VHP734 (VHP734Q) /CSM/VH/VHP7-B/VHP734Q.Seq.d/                        918   0.0
VHP681 (VHP681Q) /CSM/VH/VHP6-D/VHP681Q.Seq.d/                        918   0.0
VHP588 (VHP588Q) /CSM/VH/VHP5-D/VHP588Q.Seq.d/                        918   0.0
VHP118 (VHP118Q) /CSM/VH/VHP1-A/VHP118Q.Seq.d/                        918   0.0
VHO596 (VHO596Q) /CSM/VH/VHO5-D/VHO596Q.Seq.d/                        918   0.0
VHM740 (VHM740Q) /CSM/VH/VHM7-B/VHM740Q.Seq.d/                        918   0.0
VHL166 (VHL166Q) /CSM/VH/VHL1-C/VHL166Q.Seq.d/                        918   0.0
VHJ602 (VHJ602Q) /CSM/VH/VHJ6-A/VHJ602Q.Seq.d/                        918   0.0
VHI635 (VHI635Q) /CSM/VH/VHI6-B/VHI635Q.Seq.d/                        918   0.0
own update 2004. 8.24
Homology vs DNA 

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

CD169096|CD169096.1 MM1-0024G-M078-E11-U.B MM1-0024 Schistosoma mansoni cDNA cloneMM1-0024G-M078-E11.B, mRNA sequence.    36   0.007  3
CD169707|CD169707.1 MM1-0024T-M086-B01-U.B MM1-0024 Schistosoma mansoni cDNA clone MM1-0024T-M086-B01.B, mRNA sequence.    36   0.007  3
CD169077|CD169077.1 MM1-0024G-M078-D02-U.B MM1-0024 Schistosoma mansoni cDNA clone MM1-0024G-M078-D02.B, mRNA sequence.    36   0.007  3
CD169818|CD169818.1 MM1-0024T-M087-D03-U.B MM1-0024 Schistosoma mansoni cDNA clone MM1-0024T-M087-D03.B, mRNA sequence.    36   0.008  3
CD168683|CD168683.1 MM1-0023U-M091-D09-U.B MM1-0023 Schistosoma mansoni cDNA clone MM1-0023U-M091-D09.B, mRNA sequence.    36   0.008  3
CD169118|CD169118.1 MM1-0024G-M078-H01-U.B MM1-0024 Schistosoma mansoni cDNA clone MM1-0024G-M078-H01.B, mRNA sequence.    36   0.008  3
CD169088|CD169088.1 MM1-0024G-M078-E01-U.B MM1-0024 Schistosoma mansoni cDNA clone MM1-0024G-M078-E01.B, mRNA sequence.    36   0.008  3
CD169723|CD169723.1 MM1-0024T-M086-C08-U.B MM1-0024 Schistosoma mansoni cDNA clone MM1-0024T-M086-C08.B, mRNA sequence.    36   0.008  3
CD168977|CD168977.1 MM1-0024G-M077-B07-U.B MM1-0024 Schistosoma mansoni cDNA clone MM1-0024G-M077-B07.B, mRNA sequence.    36   0.009  3
CD129961|CD129961.1 MF1-0031U-L048-G04-U.B MF1-0031 Schistosoma mansoni cDNA clone MF1-0031U-L048-G04.B, mRNA sequence.    36   0.009  3
dna update 2006. 1.29
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54QS3) RecName: Full=Probable ATP-dependent RNA helicase ddx3;...   314   2e-84
(Q6Z4K6) RecName: Full=DEAD-box ATP-dependent RNA helicase 52B; ...   160   4e-38
(Q75HJ0) RecName: Full=DEAD-box ATP-dependent RNA helicase 37;  ...   155   8e-37
EU953399_1(EU953399|pid:none) Zea mays clone 1406878 unknown mRNA.    155   1e-36
(Q2R1M8) RecName: Full=DEAD-box ATP-dependent RNA helicase 52C; ...   153   4e-36
AY062446_1(AY062446|pid:none) Arabidopsis thaliana ATP-dependent...   153   5e-36
AM048814_1(AM048814|pid:none) Platynereis dumerilii mRNA for PL1...   152   7e-36
AM444101_1(AM444101|pid:none) Vitis vinifera contig VV78X103110....   152   9e-36
(Q9P6U9) RecName: Full=ATP-dependent RNA helicase ded-1;        ...   151   2e-35
AP008212_1481(AP008212|pid:none) Oryza sativa (japonica cultivar...   151   2e-35
protein update 2009. 5.28
PSORT 

 psg: 0.78  gvh: 0.40  alm: 0.46  top: 0.53  tms: 0.00  mit: 0.26  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 

	 44.0 %: cytoplasmic
	 28.0 %: nuclear
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  4.0 %: vesicles of secretory system
	  4.0 %: peroxisomal
	  4.0 %: endoplasmic reticulum

>> prediction for SHD216 is cyt
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID SHD216Z
3' end seq. 
>SHD216Z.Seq
NNNNNNNNNNATTTTCGTTGAAACTAAACGTTCTTGTGATACTCTTACCTACTTTTTAAA
TCAAAGAAATTTCCCAACTACCTGTATTCATGGTGATTTAACTCAACCAGAAAGAGAAAA
TGCACTTCAATCTTTCCGTTCTTTTGCAACTCCATTCTTAGTAGCAACTGATATTGCATC
AAGAGGTCTCCACATCGGTAATGTTAATTTGGTTATCAATTTCGACTTGCCTACCGACAT
ACATATCTACGTTCATCGTATTGGTAGAACCGGAAGAGCAGGAAAAAAAGGTTTAGCAAT
TTCCTTCTTCAATGAAAAGAATAAACCAGTTGGTGCTGAACTTTTGAAATTAATGAAAGC
TTCAAATCAAGATATTCCAGATTGGTTTGAAAAGATGGTACACAATCTCCGTATGTCTAA
AGGTCCATCAAACTCAAAATCAAATAGTCCATTCAACAAATCTTACAATAGTCATCACAA
TAGAGATGATAACCGTGGTGGTTATGGTGGTGGTGGTGGTGGTAATGGAGGTTACAGTAA
CAACCGTAATGATAGAAGAGAAGATAAATCAGATTACTCAATGCATCACCCATACTTTAG
CAACAATGGTGGTTCATATAATTAAACATTCACCTCATGTCATTCGTTTAATAAAAAATA
ATAAATCCATTTTAATTCAATATNNAATTAAAATCA
Length of 3' end seq. 696
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -