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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
VHC611
Library VH
(Link to library)
Clone ID VHC611
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11170-1
Original site URL
Representative seq. ID VHC611P
(Link to Original site)
Representative DNA sequence 
>VHC611 (VHC611Q) /CSM/VH/VHC6-A/VHC611Q.Seq.d/
ACGCACATATCATTAAAATATTAATATAATCCATCAAGAACTTATATTTATTTATTTATA
ATATTTTTTTAAGAGGATTACAATACACTATTAAAGTGTTGTATTAGTATAAAAAAAAAA
XXXXXXXXXXANCAATTTAATGGTAATTCAAATGATTTATCATTTTTAGGTGGTGGTGGT
GGTGGTGGTGAAGTTCAAGCACCAGTTAATAAAGTTGTTGTATTTGGTGGTGATAGATCA
CAAGCAATTCAAATTAGTGGAGCATTTACAAGATTCCAAGGTAGAATTAATTTAGAATTA
AATCTTTTGAATACAAGTCAACAAGGTATGTCAAAATTCAAGATTCAATTTTATCAAAAT
AGTTTTGGTATTTCACCAGCTGATCAAATCTTATCATGTGGTGCTATTGAAGTAGGCCAA
AGCACTGATGTCACAATTCCAATCTCATGCAATGGTCAAATCTCAAATCCATTGAATCCA
GTCATTGATATGGCAATGATGGTATTACCAAGTCAAGAGAGATTCTACTTTAAGATGAAT
TTCCCATTACTTTGTCTATTGACAGAAACTGGTCGTCTCGATCGTGAATCTTATTTATCC
ATGTGGAAATCAATTCCAGAATCAAATGAACGTTCAGTTGAAATTCAAGTACGTTTACCA
CATGTAGATGTTGACTCTATCCTTCGTCGTTTAAATAGTAAGAATATCTTTGAAATCGTT
AGAAAGAAAGCTGCCANATCAAGAAATC
sequence update 2002.10.25
Translated Amino Acid sequence 
thislky*ynpsrtyiylfiiff*EDYNTLLKCCISIKKK---

---QFNGNSNDLSFLGGGGGGGEVQAPVNKVVVFGGDRSQAIQISGAFTRFQGRINLELN
LLNTSQQGMSKFKIQFYQNSFGISPADQILSCGAIEVGQSTDVTIPISCNGQISNPLNPV
IDMAMMVLPSQERFYFKMNFPLLCLLTETGRLDRESYLSMWKSIPESNERSVEIQVRLPH
VDVDSILRRLNSKNIFEIVRKKAAXSRN
Translated Amino Acid sequence (All Frames) 
Frame A:
thislky*ynpsrtyiylfiiff*EDYNTLLKCCISIKKK---

---xnlmviqmiyhf*vvvvvvvkfkhqlikllylvvidhkqfklvehlqdskveli*n*
if*iqvnkvcqnsrfnfikivlvfhqliksyhvvllk*akalmsqfqshamvksqih*iq
sliwq*wyyqvkrdstlr*ishyfvy*qklvvsivnliypcgnqfqnqmnvqlkfkyvyh
m*mltlsfvv*ivrislkslerklpxqei

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

---xi*w*fk*fiifrwwwwww*sssts**scciww**itsnsn*wsiykipr*n*frik
sfeykstryvkiqdsilsk*fwyfts*snlimwcy*srpkh*chnsnlmqwsnlksiess
h*ygndgitksreill*defpitlsidrnwssrs*ilfihveinsrik*tfs*nsstftt
crc*lypssfk**eyl*nr*kescxikk

Frame C:
ahiikili*siknlylfiyniflrglqytikvly*ykkk---

---QFNGNSNDLSFLGGGGGGGEVQAPVNKVVVFGGDRSQAIQISGAFTRFQGRINLELN
LLNTSQQGMSKFKIQFYQNSFGISPADQILSCGAIEVGQSTDVTIPISCNGQISNPLNPV
IDMAMMVLPSQERFYFKMNFPLLCLLTETGRLDRESYLSMWKSIPESNERSVEIQVRLPH
VDVDSILRRLNSKNIFEIVRKKAAXSRN
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHC611 (VHC611Q) /CSM/VH/VHC6-A/VHC611Q.Seq.d/                       1100   0.0
VHA862 (VHA862Q) /CSM/VH/VHA8-C/VHA862Q.Seq.d/                       1084   0.0
SHF674 (SHF674Q) /CSM/SH/SHF6-D/SHF674Q.Seq.d/                       1084   0.0
SHD615 (SHD615Q) /CSM/SH/SHD6-A/SHD615Q.Seq.d/                       1084   0.0
SHA570 (SHA570Q) /CSM/SH/SHA5-C/SHA570Q.Seq.d/                       1084   0.0
SHA168 (SHA168Q) /CSM/SH/SHA1-C/SHA168Q.Seq.d/                       1084   0.0
AHK359 (AHK359Q) /CSM/AH/AHK3-C/AHK359Q.Seq.d/                       1084   0.0
AHE651 (AHE651Q) /CSM/AH/AHE6-C/AHE651Q.Seq.d/                       1084   0.0
SHD449 (SHD449Q) /CSM/SH/SHD4-C/SHD449Q.Seq.d/                       1082   0.0
VHM229 (VHM229Q) /CSM/VH/VHM2-B/VHM229Q.Seq.d/                       1076   0.0
own update 2003. 6.25
Homology vs DNA 

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

AC166018|AC166018.2 Oryctolagus cuniculus clone LB1-246C1, WORKING DRAFT SEQUENCE, 3 ordered pieces.    50   0.091  1
AC187854|AC187854.2 Populus trichocarpa clone Pop1-11B14, complete sequence.    38   0.30   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   1.4    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   1.4    1
AC140642|AC140642.5 Macaca mulatta clone CH250-288A22, *** SEQUENCING IN PROGRESS ***.    46   1.4    1
ER400257|ER400257.1 1095349054847 Global-Ocean-Sampling_GS-34-01-01-1P5-1P8KB marine metagenome genomic clone 1061005430691 5', genomic survey sequence.    46   1.4    1
EJ807179|EJ807179.1 1093017468100 Global-Ocean-Sampling_GS-30-02-01-1P0-1P3KB marine metagenome genomic clone 1061002728084 5', genomic survey sequence.    46   1.4    1
EJ328016|EJ328016.1 1092963405361 Global-Ocean-Sampling_GS-28-01-01-1P6-2P0KB marine metagenome genomic clone 1061002327787 5', genomic survey sequence.    46   1.4    1
ER400257|ER400257.1 1095349054847 Global-Ocean-Sampling_GS-34-01-01-1P5-1P8KB marine metagenome genomic clone 1061005430691 5', genomic survey sequence.    46   1.4    1
AC147774|AC147774.3 Medicago truncatula chromosome 2 BAC clone mth2-10c8, complete sequence.    46   1.4    1
dna update 2007. 4.30
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54X82) RecName: Full=AP-1 complex subunit beta; AltName: Full=...   379   e-104
(P62944) RecName: Full=AP-2 complex subunit beta-1; AltName: Ful...   107   5e-22
CR860139_1(CR860139|pid:none) Pongo abelii mRNA; cDNA DKFZp469O1...   107   5e-22
(Q08DS7) RecName: Full=AP-1 complex subunit beta-1; AltName: Ful...   107   5e-22
AY341427_1(AY341427|pid:none) Homo sapiens beta adaptin subunit ...   107   5e-22
(P63009) RecName: Full=AP-2 complex subunit beta-1; AltName: Ful...   107   5e-22
BC012150_1(BC012150|pid:none) Homo sapiens, clone IMAGE:4558274,...   107   5e-22
AK304126_1(AK304126|pid:none) Homo sapiens cDNA FLJ55646 complet...   107   5e-22
CR749392_1(CR749392|pid:none) Homo sapiens mRNA; cDNA DKFZp781K0...   106   7e-22
AB462935_1(AB462935|pid:none) Synthetic construct DNA, clone: pF...   105   1e-21
protein update 2009. 6.29
PSORT 

 psg: 0.75  gvh: 0.41  alm: 0.45  top: 0.53  tms: 0.00  mit: 0.12  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 

	 48.0 %: cytoplasmic
	 32.0 %: nuclear
	  8.0 %: cytoskeletal
	  4.0 %: vacuolar
	  4.0 %: mitochondrial
	  4.0 %: Golgi

>> prediction for VHC611 is cyt
5' end seq. ID VHC611F
5' end seq. 
>VHC611F.Seq
ACGCACATATCATTAAAATATTAATATAATCCATCAAGAACTTATATTTATTTATTTATA
ATATTTTTTTAAGAGGATTACAATACACTATTAAAGTGTTGTATTAGTATAAAAAAAAAA
NNNNNNNNNN
Length of 5' end seq. 130
3' end seq. ID VHC611Z
3' end seq. 
>VHC611Z.Seq
NNNNNNNNNNANCAATTTAATGGTAATTCAAATGATTTATCATTTTTAGGTGGTGGTGGT
GGTGGTGGTGAAGTTCAAGCACCAGTTAATAAAGTTGTTGTATTTGGTGGTGATAGATCA
CAAGCAATTCAAATTAGTGGAGCATTTACAAGATTCCAAGGTAGAATTAATTTAGAATTA
AATCTTTTGAATACAAGTCAACAAGGTATGTCAAAATTCAAGATTCAATTTTATCAAAAT
AGTTTTGGTATTTCACCAGCTGATCAAATCTTATCATGTGGTGCTATTGAAGTAGGCCAA
AGCACTGATGTCACAATTCCAATCTCATGCAATGGTCAAATCTCAAATCCATTGAATCCA
GTCATTGATATGGCAATGATGGTATTACCAAGTCAAGAGAGATTCTACTTTAAGATGAAT
TTCCCATTACTTTGTCTATTGACAGAAACTGGTCGTCTCGATCGTGAATCTTATTTATCC
ATGTGGAAATCAATTCCAGAATCAAATGAACGTTCAGTTGAAATTCAAGTACGTTTACCA
CATGTAGATGTTGACTCTATCCTTCGTCGTTTAAATAGTAAGAATATCTTTGAAATCGTT
AGAAAGAAAGCTGCCANATCAAGAAATC
Length of 3' end seq. 628
Connected seq. ID VHC611P
Connected seq. 
>VHC611P.Seq
ACGCACATATCATTAAAATATTAATATAATCCATCAAGAACTTATATTTATTTATTTATA
ATATTTTTTTAAGAGGATTACAATACACTATTAAAGTGTTGTATTAGTATAAAAAAAAAA
----------ANCAATTTAATGGTAATTCAAATGATTTATCATTTTTAGGTGGTGGTGGT
GGTGGTGGTGAAGTTCAAGCACCAGTTAATAAAGTTGTTGTATTTGGTGGTGATAGATCA
CAAGCAATTCAAATTAGTGGAGCATTTACAAGATTCCAAGGTAGAATTAATTTAGAATTA
AATCTTTTGAATACAAGTCAACAAGGTATGTCAAAATTCAAGATTCAATTTTATCAAAAT
AGTTTTGGTATTTCACCAGCTGATCAAATCTTATCATGTGGTGCTATTGAAGTAGGCCAA
AGCACTGATGTCACAATTCCAATCTCATGCAATGGTCAAATCTCAAATCCATTGAATCCA
GTCATTGATATGGCAATGATGGTATTACCAAGTCAAGAGAGATTCTACTTTAAGATGAAT
TTCCCATTACTTTGTCTATTGACAGAAACTGGTCGTCTCGATCGTGAATCTTATTTATCC
ATGTGGAAATCAATTCCAGAATCAAATGAACGTTCAGTTGAAATTCAAGTACGTTTACCA
CATGTAGATGTTGACTCTATCCTTCGTCGTTTAAATAGTAAGAATATCTTTGAAATCGTT
AGAAAGAAAGCTGCCANATCAAGAAATC
Length of connected seq. 738
Full length Seq ID -
Full length Seq. -
Length of full length seq. -