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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
VHD854
Library VH
(Link to library)
Clone ID VHD854
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11170-1
Original site URL
Representative seq. ID VHD854P
(Link to Original site)
Representative DNA sequence 
>VHD854 (VHD854Q) /CSM/VH/VHD8-C/VHD854Q.Seq.d/
AACACGCACATATCATTAAAATATTAATATAATCCATCAAGAACTTATATTTATTTATTT
ATAATATTTTTTTAAGAGGATTACAATACACTATTAAAGTGTTGTATTAGTATAAAAAAA
AAAXXXXXXXXXXCAAATTAGTGGAGCATTTACAAGATTCCAAGGTAGAATTAATTTAGA
ATTAAATCTTTTGAATACAAGTCAACAAGGTATGTCAAAATTCAAGATTCAATTTTATCA
AAATAGTTTTGGTATTTCACCAGCTGATCAAATCTTATCATGTGGTGCTATTGAAGTAGG
CCAAAGCACTGATGTCACAATTCCAATCTCATGCAATGGTCAAATCTCAAATCCATTGAA
TCCAGTCATTGATATGGCAATGATGGTATTACCAAGTCAAGAGAGATTCTACTTTAAGAT
GAATTTCCCATTACTTTGTCTATTGACAGAAACTGGTCGTCTCGATCGTGAATCTTATTT
ATCCATGTGGAAATCAATTCCAGAATCAAATGAACGTTCAGTTGAAATTCAAGTACGTTT
ACCACATGTAGATGTTGACTCTATCCTTCGTCGTTTAAATAGTAAGAATATCTTTGAAAT
CGTTAGAAAGAAAGCCCCANATCAAGAAATGTCTTTCCT
sequence update 2002.10.25
Translated Amino Acid sequence 
nthislky*ynpsrtyiylfiiff*EDYNTLLKCCISIKKK---

---QISGAFTRFQGRINLELNLLNTSQQGMSKFKIQFYQNSFGISPADQILSCGAIEVGQ
STDVTIPISCNGQISNPLNPVIDMAMMVLPSQERFYFKMNFPLLCLLTETGRLDRESYLS
MWKSIPESNERSVEIQVRLPHVDVDSILRRLNSKNIFEIVRKKAPXQEMSF
Translated Amino Acid sequence (All Frames) 
Frame A:
nthislky*ynpsrtyiylfiiff*EDYNTLLKCCISIKKK---

---QISGAFTRFQGRINLELNLLNTSQQGMSKFKIQFYQNSFGISPADQILSCGAIEVGQ
STDVTIPISCNGQISNPLNPVIDMAMMVLPSQERFYFKMNFPLLCLLTETGRLDRESYLS
MWKSIPESNERSVEIQVRLPHVDVDSILRRLNSKNIFEIVRKKAPXQEMSF

Frame B:
trtyh*niniihqelifiyl*yffkritihy*svvlv*kk---

---klvehlqdskveli*n*if*iqvnkvcqnsrfnfikivlvfhqliksyhvvllk*ak
almsqfqshamvksqih*iqsliwq*wyyqvkrdstlr*ishyfvy*qklvvsivnliyp
cgnqfqnqmnvqlkfkyvyhm*mltlsfvv*ivrislkslerkpxikkcls

Frame C:
hahiikili*siknlylfiyniflrglqytikvly*ykkk---

---n*wsiykipr*n*friksfeykstryvkiqdsilsk*fwyfts*snlimwcy*srpk
h*chnsnlmqwsnlksiessh*ygndgitksreill*defpitlsidrnwssrs*ilfih
veinsrik*tfs*nsstfttcrc*lypssfk**eyl*nr*kespxsrnvfp
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHD854 (VHD854Q) /CSM/VH/VHD8-C/VHD854Q.Seq.d/                        997   0.0
VHN515 (VHN515Q) /CSM/VH/VHN5-A/VHN515Q.Seq.d/                        985   0.0
VHM880 (VHM880Q) /CSM/VH/VHM8-D/VHM880Q.Seq.d/                        981   0.0
VHA862 (VHA862Q) /CSM/VH/VHA8-C/VHA862Q.Seq.d/                        981   0.0
VFF468 (VFF468Q) /CSM/VF/VFF4-C/VFF468Q.Seq.d/                        981   0.0
SHF674 (SHF674Q) /CSM/SH/SHF6-D/SHF674Q.Seq.d/                        981   0.0
SHD615 (SHD615Q) /CSM/SH/SHD6-A/SHD615Q.Seq.d/                        981   0.0
SHA570 (SHA570Q) /CSM/SH/SHA5-C/SHA570Q.Seq.d/                        981   0.0
SHA168 (SHA168Q) /CSM/SH/SHA1-C/SHA168Q.Seq.d/                        981   0.0
CHG516 (CHG516Q) /CSM/CH/CHG5-A/CHG516Q.Seq.d/                        981   0.0
own update 2002.12.25
Homology vs DNA 

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

AC187854|AC187854.2 Populus trichocarpa clone Pop1-11B14, complete sequence.    38   0.15   5
CX072513|CX072513.1 UCRCS08_28E10_g Parent Washington Navel Orange Callus cDNA Library UCRCS08-2 Citrus sinensis cDNA clone UCRCS08-28E10-J20-1-4.g, mRNA sequence.    46   1.2    1
CX072512|CX072512.1 UCRCS08_28E10_b Parent Washington Navel Orange Callus cDNA Library UCRCS08-2 Citrus sinensis cDNA clone UCRCS08-28E10-J20-1-5.b, mRNA sequence.    46   1.2    1
AC140642|AC140642.5 Macaca mulatta clone CH250-288A22, *** SEQUENCING IN PROGRESS ***, 1 ordered piece.    46   1.2    1
ER400257|ER400257.1 1095349054847 Global-Ocean-Sampling_GS-34-01-01-1P5-1P8KB marine metagenome genomic clone 1061005430691 5', genomic survey sequence.    46   1.2    1
EJ807179|EJ807179.1 1093017468100 Global-Ocean-Sampling_GS-30-02-01-1P0-1P3KB marine metagenome genomic clone 1061002728084 5', genomic survey sequence.    46   1.2    1
EJ328016|EJ328016.1 1092963405361 Global-Ocean-Sampling_GS-28-01-01-1P6-2P0KB marine metagenome genomic clone 1061002327787 5', genomic survey sequence.    46   1.2    1
AC203491|AC203491.1 Colobus guereza clone CH272-426E10, WORKING DRAFT SEQUENCE, 15 unordered pieces.    42   6.4    3
CE759919|CE759919.1 tigr-gss-dog-17000369972948 Dog Library Canis familiaris genomic, genomic survey sequence.    34   7.7    2
AC106977|AC106977.4 Rattus norvegicus clone CH230-238D13, *** SEQUENCING IN PROGRESS ***, 2 unordered pieces.    40   7.8    2
dna update 2007. 6.26
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54X82) RecName: Full=AP-1 complex subunit beta; AltName: Full=...   330   2e-89
(P62944) RecName: Full=AP-2 complex subunit beta-1; AltName: Ful...   108   1e-22
CR860139_1(CR860139|pid:none) Pongo abelii mRNA; cDNA DKFZp469O1...   108   1e-22
(Q08DS7) RecName: Full=AP-1 complex subunit beta-1; AltName: Ful...   108   1e-22
AY341427_1(AY341427|pid:none) Homo sapiens beta adaptin subunit ...   108   1e-22
(P63009) RecName: Full=AP-2 complex subunit beta-1; AltName: Ful...   108   1e-22
BC012150_1(BC012150|pid:none) Homo sapiens, clone IMAGE:4558274,...   108   1e-22
AK304126_1(AK304126|pid:none) Homo sapiens cDNA FLJ55646 complet...   108   1e-22
CR749392_1(CR749392|pid:none) Homo sapiens mRNA; cDNA DKFZp781K0...   108   1e-22
AB462935_1(AB462935|pid:none) Synthetic construct DNA, clone: pF...   107   2e-22
protein update 2009. 6.30
PSORT 

 psg: 0.75  gvh: 0.46  alm: 0.45  top: 0.53  tms: 0.00  mit: 0.19  mip: 0.00
 nuc: 0.06  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
	 24.0 %: nuclear
	 12.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: vacuolar
	  4.0 %: Golgi
	  4.0 %: vesicles of secretory system
	  4.0 %: endoplasmic reticulum

>> prediction for VHD854 is cyt
5' end seq. ID VHD854F
5' end seq. 
>VHD854F.Seq
AACACGCACATATCATTAAAATATTAATATAATCCATCAAGAACTTATATTTATTTATTT
ATAATATTTTTTTAAGAGGATTACAATACACTATTAAAGTGTTGTATTAGTATAAAAAAA
AAANNNNNNNNNN
Length of 5' end seq. 133
3' end seq. ID VHD854Z
3' end seq. 
>VHD854Z.Seq
NNNNNNNNNNCAAATTAGTGGAGCATTTACAAGATTCCAAGGTAGAATTAATTTAGAATT
AAATCTTTTGAATACAAGTCAACAAGGTATGTCAAAATTCAAGATTCAATTTTATCAAAA
TAGTTTTGGTATTTCACCAGCTGATCAAATCTTATCATGTGGTGCTATTGAAGTAGGCCA
AAGCACTGATGTCACAATTCCAATCTCATGCAATGGTCAAATCTCAAATCCATTGAATCC
AGTCATTGATATGGCAATGATGGTATTACCAAGTCAAGAGAGATTCTACTTTAAGATGAA
TTTCCCATTACTTTGTCTATTGACAGAAACTGGTCGTCTCGATCGTGAATCTTATTTATC
CATGTGGAAATCAATTCCAGAATCAAATGAACGTTCAGTTGAAATTCAAGTACGTTTACC
ACATGTAGATGTTGACTCTATCCTTCGTCGTTTAAATAGTAAGAATATCTTTGAAATCGT
TAGAAAGAAAGCCCCANATCAAGAAATGTCTTTCCT
Length of 3' end seq. 516
Connected seq. ID VHD854P
Connected seq. 
>VHD854P.Seq
AACACGCACATATCATTAAAATATTAATATAATCCATCAAGAACTTATATTTATTTATTT
ATAATATTTTTTTAAGAGGATTACAATACACTATTAAAGTGTTGTATTAGTATAAAAAAA
AAA----------CAAATTAGTGGAGCATTTACAAGATTCCAAGGTAGAATTAATTTAGA
ATTAAATCTTTTGAATACAAGTCAACAAGGTATGTCAAAATTCAAGATTCAATTTTATCA
AAATAGTTTTGGTATTTCACCAGCTGATCAAATCTTATCATGTGGTGCTATTGAAGTAGG
CCAAAGCACTGATGTCACAATTCCAATCTCATGCAATGGTCAAATCTCAAATCCATTGAA
TCCAGTCATTGATATGGCAATGATGGTATTACCAAGTCAAGAGAGATTCTACTTTAAGAT
GAATTTCCCATTACTTTGTCTATTGACAGAAACTGGTCGTCTCGATCGTGAATCTTATTT
ATCCATGTGGAAATCAATTCCAGAATCAAATGAACGTTCAGTTGAAATTCAAGTACGTTT
ACCACATGTAGATGTTGACTCTATCCTTCGTCGTTTAAATAGTAAGAATATCTTTGAAAT
CGTTAGAAAGAAAGCCCCANATCAAGAAATGTCTTTCCT
Length of connected seq. 629
Full length Seq ID -
Full length Seq. -
Length of full length seq. -