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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
VHC560
Library VH
(Link to library)
Clone ID VHC560
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U13501-1|Contig-U16349-1
Original site URL
Representative seq. ID VHC560P
(Link to Original site)
Representative DNA sequence 
>VHC560 (VHC560Q) /CSM/VH/VHC5-C/VHC560Q.Seq.d/
AATACAATTATTGGGTAAATTAAAATTCTAATTGTCTAAATTTATTTATTTTTTTTGTCT
TTATTTTATTATTGTTTTTTTAATAAATAATAGTAGATAAATAATAATAAATTATTAATA
ATTAAANATCAATTAAAAAAAAAATAAAAATAAAAAATAANATNCAAAAAAAAAAXXXXX
XXXXXACTCCTCCCTTTGTATGGCTATGCCTGATATGTCACAATGTGCCAATTGGACCAA
GATGTGTTCCTCCTCTGGTCAACTNTACAACTCTCAAATCACATCAGACTATTGTGTCGC
CTCTGTTGCNGACGCCGTTCCAATCATGAGAATGTACTTTCACACTGGTATCTTGGACTA
TATCCTCTTTAAATCTTGGGTACCAAGAACTGGCCGTCAATTTGCTGGTTCATGGTTTGC
sequence update 2002.10.25
Translated Amino Acid sequence 
ynywvn*nsnclnlfiffvfilllff**iivdk***iinn*XSIKKKIKIKNXXQKK---

---SSLCMAMPDMSQCANWTKMCSSSGQLYNSQITSDYCVASVADAVPIMRMYFHTGILD
YILFKSWVPRTGRQFAGSWF
Translated Amino Acid sequence (All Frames) 
Frame A:
ntiig*ikiliv*iylfflslfyycffnk***innnklliikxqlkkk*k*kixxkkk--
-

---tppfvwlclichnvpigprcvpplvnxttlkshqtivspllxtpfqs*ectftlvsw
tisslnlgyqelavnllvhgl

Frame B:
iqllgklkf*lskfiyffclyfiivflinnsr*iiiny**lxin*kknknkk*xxkkk--
-

---llplygya*yvtmcqldqdvfllwstxqlsnhirllcrlccxrrsnhenvlshwylg
lypl*ilgtknwpsicwfmvc

Frame C:
ynywvn*nsnclnlfiffvfilllff**iivdk***iinn*XSIKKKIKIKNXXQKK---

---SSLCMAMPDMSQCANWTKMCSSSGQLYNSQITSDYCVASVADAVPIMRMYFHTGILD
YILFKSWVPRTGRQFAGSWF
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHC560 (VHC560Q) /CSM/VH/VHC5-C/VHC560Q.Seq.d/                        454   e-127
VHQ111 (VHQ111Q) /CSM/VH/VHQ1-A/VHQ111Q.Seq.d/                        446   e-124
VHP801 (VHP801Q) /CSM/VH/VHP8-A/VHP801Q.Seq.d/                        446   e-124
VHP253 (VHP253Q) /CSM/VH/VHP2-C/VHP253Q.Seq.d/                        446   e-124
VHN129 (VHN129Q) /CSM/VH/VHN1-B/VHN129Q.Seq.d/                        446   e-124
VHM865 (VHM865Q) /CSM/VH/VHM8-C/VHM865Q.Seq.d/                        446   e-124
VHM772 (VHM772Q) /CSM/VH/VHM7-C/VHM772Q.Seq.d/                        446   e-124
VHM580 (VHM580Q) /CSM/VH/VHM5-D/VHM580Q.Seq.d/                        446   e-124
VHK521 (VHK521Q) /CSM/VH/VHK5-A/VHK521Q.Seq.d/                        446   e-124
VHJ528 (VHJ528Q) /CSM/VH/VHJ5-B/VHJ528Q.Seq.d/                        446   e-124
own update 2004.12.24
Homology vs DNA 

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

AJ315489|AJ315489.1 Dictyostelium discoideum mRNA for p80 protein.   446   e-121  1
AY054095|AY054095.1 Phrynocephalus versicolor isolate 0983 NADH dehydrogenase subunit 4(ND4) gene, partial cds; tRNA-His and tRNA-Ser genes, complete sequence; and tRNA-Leu gene, partial sequence; mitochondrial genes encoding mitochondrial products.    44   3.1    1
AY054094|AY054094.1 Phrynocephalus versicolor isolate 0981 NADH dehydrogenase subunit 4(ND4) gene, partial cds; tRNA-His and tRNA-Ser genes, complete sequence; and tRNA-Leu gene, partial sequence; mitochondrial genes encoding mitochondrial products.    44   3.1    1
AY054093|AY054093.1 Phrynocephalus versicolor isolate 0787 NADH dehydrogenase subunit 4(ND4) gene, partial cds; tRNA-His and tRNA-Ser genes, complete sequence; and tRNA-Leu gene, partial sequence; mitochondrial genes encoding mitochondrial products.    44   3.1    1
AY054092|AY054092.1 Phrynocephalus versicolor isolate 0760 NADH dehydrogenase subunit 4(ND4) gene, partial cds; tRNA-His and tRNA-Ser genes, complete sequence; and tRNA-Leu gene, partial sequence; mitochondrial genes encoding mitochondrial products.    44   3.1    1
AY054091|AY054091.1 Phrynocephalus versicolor isolate 0706 NADH dehydrogenase subunit 4(ND4) gene, partial cds; tRNA-His and tRNA-Ser genes, complete sequence; and tRNA-Leu gene, partial sequence; mitochondrial genes encoding mitochondrial products.    44   3.1    1
AY054090|AY054090.1 Phrynocephalus versicolor isolate 01072 NADH dehydrogenase subunit 4(ND4) gene, partial cds; tRNA-His and tRNA-Ser genes, complete sequence; and tRNA-Leu gene, partial sequence; mitochondrial genes encoding mitochondrial products.    44   3.1    1
AY054061|AY054061.1 Phrynocephalus przewalskii isolate RM3939 NADH dehydrogenase subunit 4(ND4) gene, partial cds; tRNA-His and tRNA-Ser genes, complete sequence; and tRNA-Leu gene, partial sequence; mitochondrial genes encoding mitochondrial products.    44   3.1    1
AY054060|AY054060.1 Phrynocephalus przewalskii isolate 0790 NADH dehydrogenase subunit 4(ND4) gene, partial cds; tRNA-His and tRNA-Ser genes, complete sequence; and tRNA-Leu gene, partial sequence; mitochondrial genes encoding mitochondrial products.    44   3.1    1
AY054059|AY054059.1 Phrynocephalus przewalskii isolate 0789 NADH dehydrogenase subunit 4(ND4) gene, partial cds; tRNA-His and tRNA-Ser genes, complete sequence; and tRNA-Leu gene, partial sequence; mitochondrial genes encoding mitochondrial products.    44   3.1    1
dna update 2007. 4.30
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q7YXD4) RecName: Full=Protein P80; AltName: Full=Endosomal memb...   164   1e-39
DQ646486_1(DQ646486|pid:none) Chlamydomonas reinhardtii transmem...    42   0.009
protein update 2009. 2.24
PSORT 

 psg: 0.49  gvh: 0.51  alm: 0.43  top: 0.53  tms: 0.00  mit: 0.33  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 

	 36.0 %: nuclear
	 32.0 %: cytoplasmic
	 20.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: vesicles of secretory system

>> prediction for VHC560 is nuc
5' end seq. ID VHC560F
5' end seq. 
>VHC560F.Seq
AATACAATTATTGGGTAAATTAAAATTCTAATTGTCTAAATTTATTTATTTTTTTTGTCT
TTATTTTATTATTGTTTTTTTAATAAATAATAGTAGATAAATAATAATAAATTATTAATA
ATTAAANATCAATTAAAAAAAAAATAAAAATAAAAAATAANATNCAAAAAAAAAANNNNN
NNNNN
Length of 5' end seq. 185
3' end seq. ID VHC560Z
3' end seq. 
>VHC560Z.Seq
NNNNNNNNNNACTCCTCCCTTTGTATGGCTATGCCTGATATGTCACAATGTGCCAATTGG
ACCAAGATGTGTTCCTCCTCTGGTCAACTNTACAACTCTCAAATCACATCAGACTATTGT
GTCGCCTCTGTTGCNGACGCCGTTCCAATCATGAGAATGTACTTTCACACTGGTATCTTG
GACTATATCCTCTTTAAATCTTGGGTACCAAGAACTGGCCGTCAATTTGCTGGTTCATGG
TTTGC
Length of 3' end seq. 245
Connected seq. ID VHC560P
Connected seq. 
>VHC560P.Seq
AATACAATTATTGGGTAAATTAAAATTCTAATTGTCTAAATTTATTTATTTTTTTTGTCT
TTATTTTATTATTGTTTTTTTAATAAATAATAGTAGATAAATAATAATAAATTATTAATA
ATTAAANATCAATTAAAAAAAAAATAAAAATAAAAAATAANATNCAAAAAAAAAA-----
-----ACTCCTCCCTTTGTATGGCTATGCCTGATATGTCACAATGTGCCAATTGGACCAA
GATGTGTTCCTCCTCTGGTCAACTNTACAACTCTCAAATCACATCAGACTATTGTGTCGC
CTCTGTTGCNGACGCCGTTCCAATCATGAGAATGTACTTTCACACTGGTATCTTGGACTA
TATCCTCTTTAAATCTTGGGTACCAAGAACTGGCCGTCAATTTGCTGGTTCATGGTTTGC
Length of connected seq. 410
Full length Seq ID -
Full length Seq. -
Length of full length seq. -