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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
VHD461
Library VH
(Link to library)
Clone ID VHD461
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15499-1
Original site URL
Representative seq. ID VHD461P
(Link to Original site)
Representative DNA sequence 
>VHD461 (VHD461Q) /CSM/VH/VHD4-C/VHD461Q.Seq.d/
TATAAATNAATATAACCCAGGTATGAATTTGAGATATATCCAACAAATAGATCGTGCTGT
TATGTTTGTACCAATCAATCGTGATGATCCATTCACTCTTCGTTATCAAGATGCCACATG
GGATCCAGTGGAGTATGATTCATTAATTAACTATTTGGTTGCAAATCCAAGTAAATGGAG
ATCTGATTCATAAAGAAATAACCAAAAAAAGGTTTTAAATAATAAAATCATGATTTTTAT
TATTTCACTAAAAAAAAAAXXXXXXXXXXTATAAATCAATATAACCCAGGTATGAATTTG
AGATATATCCAACAAATAGATCGTGCTGTTATGTTTGTACCAATCAATCGTGATGATCCA
TTCACTCTTCGTTATCAAGATGCCACATGGGATCCAGTGGAGTATGATTCATTAATTAAC
TATTTGGTTGCAAATCCAAGTAAATGGAGATCTGATTCATAAAGAAATAACCAAAAAAAG
GTTTTAAATAATAAAATCANATTTTTAT
sequence update 2002.10.25
Translated Amino Acid sequence 
inxynpgmnlryiqqidravmfvpinrddpftlryqdatwdpveydslinylvanpskwr
sds*RNNQKKVLNNKIMIFIISLKKK---

---INQYNPGMNLRYIQQIDRAVMFVPINRDDPFTLRYQDATWDPVEYDSLINYLVANPS
KWRSDS*rnnqkkvlnnkixfl
Translated Amino Acid sequence (All Frames) 
Frame A:
ykxi*pryefeiyptnrsccyvctnqs**sihsslsrchmgssgv*fin*lfgcksk*me
i*fikk*pkkgfk**nhdfyyftkkk---

---yksi*pryefeiyptnrsccyvctnqs**sihsslsrchmgssgv*fin*lfgcksk
*mei*fikk*pkkgfk**nxif

Frame B:
inxynpgmnlryiqqidravmfvpinrddpftlryqdatwdpveydslinylvanpskwr
sds*RNNQKKVLNNKIMIFIISLKKK---

---INQYNPGMNLRYIQQIDRAVMFVPINRDDPFTLRYQDATWDPVEYDSLINYLVANPS
KWRSDS*rnnqkkvlnnkixfl

Frame C:
*xnitqv*i*disnk*ivllclyqsivmihslfvikmphgiqwsmih*ltiwlqiqvngd
lihkeitkkrf*iiks*fllfh*kk---

---*initqv*i*disnk*ivllclyqsivmihslfvikmphgiqwsmih*ltiwlqiqv
ngdlihkeitkkrf*iiksxfy
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSB592 (VSB592Q) /CSM/VS/VSB5-D/VSB592Q.Seq.d/                        446   e-124
VHN582 (VHN582Q) /CSM/VH/VHN5-D/VHN582Q.Seq.d/                        446   e-124
VHI264 (VHI264Q) /CSM/VH/VHI2-C/VHI264Q.Seq.d/                        446   e-124
VHI256 (VHI256Q) /CSM/VH/VHI2-C/VHI256Q.Seq.d/                        446   e-124
VHD461 (VHD461Q) /CSM/VH/VHD4-C/VHD461Q.Seq.d/                        446   e-124
VFL580 (VFL580Q) /CSM/VF/VFL5-D/VFL580Q.Seq.d/                        446   e-124
VFF853 (VFF853Q) /CSM/VF/VFF8-C/VFF853Q.Seq.d/                        446   e-124
SSA683 (SSA683Q) /CSM/SS/SSA6-D/SSA683Q.Seq.d/                        434   e-121
VHG246 (VHG246Q) /CSM/VH/VHG2-B/VHG246Q.Seq.d/                        426   e-118
VHD159 (VHD159Q) /CSM/VH/VHD1-C/VHD159Q.Seq.d/                        426   e-118
own update 2003.10.16
Homology vs DNA 

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

X94341|X94341.1 D.discoideum mRNA for unknown protein with homology to spore  germination protein.   394   e-121  2
U48706|U48706.1 Dictyostelium discoideum small aggregate formation (smlA) gene, complete cds.    86   1e-12  1
CU407055|CU407055.5 Pig DNA sequence *** SEQUENCING IN PROGRESS *** from clone  CH242-239H3.    42   0.051  5
AE014838|AE014838.1 Plasmodium falciparum 3D7 chromosome 11 section 3 of 8 of the complete sequence.    50   0.061  1
AM466941|AM466941.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X255442.7, clone ENTAV 115.    40   0.17   2
AC110153|AC110153.1 Mus musculus clone RP23-150E20, LOW-PASS SEQUENCE SAMPLING.    34   0.55   5
DN345516|DN345516.1 LIB3551-016-P1-K1-H11 LIB3551 Canis familiaris cDNA clone CLN2205208, mRNA sequence.    34   0.70   2
AC117727|AC117727.1 Mus musculus clone RP24-124E2, LOW-PASS SEQUENCE SAMPLING.    32   0.81   5
CX555047|CX555047.1 yda95a11.y2 Sea urchin EST Lib1 Strongylocentrotus purpuratus cDNA clone yda95a11 5' similar to SW:RL19_HUMAN P14118 60S RIBOSOMAL PROTEIN L19. ;, mRNA sequence.    46   0.96   1
CK829062|CK829062.1 Sp1183 Bacterially activated coelomocyte, arrayed Strongylocentrotus purpuratus cDNA clone Sp1183 5' similar to Ribsomal protein 60S L19, mRNA sequence.    46   0.96   1
dna update 2007. 5.17
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AC116330_41(AC116330|pid:none) Dictyostelium discoideum chromoso...    35   0.79
AE014185_69(AE014185|pid:none) Plasmodium falciparum 3D7 chromos...    34   2.3
protein update 2009. 6.29
PSORT 

 psg: 0.99  gvh: 0.25  alm: 0.46  top: 0.53  tms: 0.00  mit: 0.40  mip: 0.07
 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 

	 28.0 %: cytoplasmic
	 28.0 %: mitochondrial
	 28.0 %: nuclear
	  8.0 %: cytoskeletal
	  4.0 %: plasma membrane
	  4.0 %: peroxisomal

>> prediction for VHD461 is cyt
5' end seq. ID VHD461F
5' end seq. 
>VHD461F.Seq
TATAAATNAATATAACCCAGGTATGAATTTGAGATATATCCAACAAATAGATCGTGCTGT
TATGTTTGTACCAATCAATCGTGATGATCCATTCACTCTTCGTTATCAAGATGCCACATG
GGATCCAGTGGAGTATGATTCATTAATTAACTATTTGGTTGCAAATCCAAGTAAATGGAG
ATCTGATTCATAAAGAAATAACCAAAAAAAGGTTTTAAATAATAAAATCATGATTTTTAT
TATTTCACTAAAAAAAAAANNNNNNNNNN
Length of 5' end seq. 269
3' end seq. ID VHD461Z
3' end seq. 
>VHD461Z.Seq
NNNNNNNNNNTATAAATCAATATAACCCAGGTATGAATTTGAGATATATCCAACAAATAG
ATCGTGCTGTTATGTTTGTACCAATCAATCGTGATGATCCATTCACTCTTCGTTATCAAG
ATGCCACATGGGATCCAGTGGAGTATGATTCATTAATTAACTATTTGGTTGCAAATCCAA
GTAAATGGAGATCTGATTCATAAAGAAATAACCAAAAAAAGGTTTTAAATAATAAAATCA
NATTTTTAT
Length of 3' end seq. 249
Connected seq. ID VHD461P
Connected seq. 
>VHD461P.Seq
TATAAATNAATATAACCCAGGTATGAATTTGAGATATATCCAACAAATAGATCGTGCTGT
TATGTTTGTACCAATCAATCGTGATGATCCATTCACTCTTCGTTATCAAGATGCCACATG
GGATCCAGTGGAGTATGATTCATTAATTAACTATTTGGTTGCAAATCCAAGTAAATGGAG
ATCTGATTCATAAAGAAATAACCAAAAAAAGGTTTTAAATAATAAAATCATGATTTTTAT
TATTTCACTAAAAAAAAAA----------TATAAATCAATATAACCCAGGTATGAATTTG
AGATATATCCAACAAATAGATCGTGCTGTTATGTTTGTACCAATCAATCGTGATGATCCA
TTCACTCTTCGTTATCAAGATGCCACATGGGATCCAGTGGAGTATGATTCATTAATTAAC
TATTTGGTTGCAAATCCAAGTAAATGGAGATCTGATTCATAAAGAAATAACCAAAAAAAG
GTTTTAAATAATAAAATCANATTTTTAT
Length of connected seq. 498
Full length Seq ID -
Full length Seq. -
Length of full length seq. -