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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
VHA378
Library VH
(Link to library)
Clone ID VHA378
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U11361-1
Original site URL
Representative seq. ID VHA378P
(Link to Original site)
Representative DNA sequence 
>VHA378 (VHA378Q) /CSM/VH/VHA3-D/VHA378Q.Seq.d/
AAAATATTTATTCCTGTATTAATAAATATAGATACACATATATATAAACTAAAATGGGTC
AAAAGAAAAAGAAGTTAGCCAAGGGTCGTTTAGATAAGTTTTACTATATGGCCAAAGAGC
AAGGTTATAGATCTCGTGCTGCTTTCAAATTAATTCAATTAAATAAAAAATACAATTTTT
TGGGTACCGCAAAAGCTTGTTTAGATCTTTGTGCTGCACCAGGTGGTTGGATGCAAGTTG
CATCAAAATATATGCCAGTTCAATCATTAATTGTTGGTGTAGATTTAGTACCAATTAGAC
AAGTTAGAAATTGTATTGGTTTAACAGAAGATATTACAACACAAAAGTGTAGAACAGAGA
TTAAAAAAGCATTGAAAACATGGAAAGTTGATGTATGTTTACATGATGGTGCACCAAATA
TGGGTACATCATGGGTACAAGATGCATATCAACAAGCGGAATTAACTTTACATGCATTAA
AGTTGGCAACTGAATTCCTTACTACTGGTGGTTGGTTTGTAACTAAAGTTTTCAGAGGCT
CAGATTATAATTCATTGATTTGGGTATTCAACAAACTCTTTAAAAAAGTTGAATCTACTA
AACCACCATCATCACGTAATGCATCAGCAGAGATXXXXXXXXXXCAGTGCTGAATTTGGT
AAACAAAAGAGTAAATATCAAAAGAATCCAACATTGGATGATAAAGATGATCAAGATGAT
GATGATGATAAAGGAATAGCATTAAAGGTTTCGAAGAAGTACCAGTTCAAGAAGAGGTTG
AATATGAATCAGACTCGGATGAAGATATTGATGATAAAATTAAAACTAAAGCATTGGGTG
AATTCTTGATTAGAAAGAAATCAAGACAAGATTTAATCGATGATTCATTTAATAAATATG
CATTCAATGATACAGGTTTACCAAATTGGTTCACTGATGATGAAAATCGTCATAATAAAG
CTCAAACTCCACTCACCAAAGAAATGGTCGATGAAATTAGAAGAAAGATTAAAGAAATTG
ATGATCGTCCAATCAAGAAGATCGCAGAGGCTAAGGCTAGAAAGAAGTATCGTCTTGGTA
AGAAAATGGAGAAAACTCGTGACAAGGCAAGTAGTATCGTTGATAATCCAGAAATGTCCA
ATCGTGAGAAATCTAAAGCCATTGAAAAACTTTACTCTGGTACTGATAAGAAGAATATGA
AACCAAAGAAGATCATCATGATTGCTAAAAAATCAAAAACTGCNGGTGGTGGTACTGGTA
AATACAAGATCGTTGATAAACGTATGAAGAAAGATTTAAGAGCTCAAAAGAATAAATTAA
AAACTGTTGGACGTTCAAAAGATTCTTCTAAAAAGTCAAAACCAAGGGGGTAAAAATA
sequence update 2002.10.25
Translated Amino Acid sequence 
niyscinkyrytyi*TKMGQKKKKLAKGRLDKFYYMAKEQGYRSRAAFKLIQLNKKYNFL
GTAKACLDLCAAPGGWMQVASKYMPVQSLIVGVDLVPIRQVRNCIGLTEDITTQKCRTEI
KKALKTWKVDVCLHDGAPNMGTSWVQDAYQQAELTLHALKLATEFLTTGGWFVTKVFRGS
DYNSLIWVFNKLFKKVESTKPPSSRNASAE---

---SAEFGKQKSKYQKNPTLDDKDDQDDDDDKGIALKVSKKYQFKKRLNMNQTRMKILMI
KLKLKHWVNS*lernqdki*smihlinmhsmiqvyqigslmmkiviiklklhspkkwsmk
leerlkklmivqsrrsqrlrlersivlvrkwrklvtrqvvsliiqkcpivrnlkplknft
lvlirri*nqrrss*llknqklxvvvlvntrslinv*rki*elkrin*klldvqkillks
qnqggkn
Translated Amino Acid sequence (All Frames) 
Frame A:
kifipvlinidthiyklkwvkrkrs*prvv*isftiwpkskvidlvllsn*fn*ikntif
wvpqklv*ifvlhqvvgcklhqnicqfnh*llv*i*yqldkleivlv*qkilqhksveqr
lkkh*khgklmyvymmvhqiwvhhgykmhinkrn*lymh*swqlnslllvvgl*lkfsea
qiiih*fgystnslkklnllnhhhhvmhqqr---

---qc*iw*tke*iskesnig**r*sr*****rnsikgfeevpvqeeveyesdsdedidd
kiktkalgeflirkksrqdliddsfnkyafndtglpnwftddenrhnkaqtpltkemvde
irrkikeiddrpikkiaeakarkkyrlgkkmektrdkassivdnpemsnrekskaiekly
sgtdkknmkpkkiimiakksktagggtgkykivdkrmkkdlraqknklktvgrskdsskk
skprg*k

Frame B:
kylfly**i*ihiyin*ngskekevsqgsfr*vllygqrarl*isccfqinsik*kiqff
gyrkslfrslcctrwldascikiyassiincwcrfstn*ts*klywfnrryyntkv*nrd
*ksienmes*cmft*wctkygyimgtrcistsginftcikvgn*ipyywwlvcn*sfqrl
rl*fidlgiqqtl*ks*iy*ttiit*cisrd---

---SAEFGKQKSKYQKNPTLDDKDDQDDDDDKGIALKVSKKYQFKKRLNMNQTRMKILMI
KLKLKHWVNS*lernqdki*smihlinmhsmiqvyqigslmmkiviiklklhspkkwsmk
leerlkklmivqsrrsqrlrlersivlvrkwrklvtrqvvsliiqkcpivrnlkplknft
lvlirri*nqrrss*llknqklxvvvlvntrslinv*rki*elkrin*klldvqkillks
qnqggkn

Frame C:
niyscinkyrytyi*TKMGQKKKKLAKGRLDKFYYMAKEQGYRSRAAFKLIQLNKKYNFL
GTAKACLDLCAAPGGWMQVASKYMPVQSLIVGVDLVPIRQVRNCIGLTEDITTQKCRTEI
KKALKTWKVDVCLHDGAPNMGTSWVQDAYQQAELTLHALKLATEFLTTGGWFVTKVFRGS
DYNSLIWVFNKLFKKVESTKPPSSRNASAE---

---vlnlvnkrvnikriqhwmikmikmmmmike*h*rfrrstssrrg*i*irlg*ry***
n*n*sig*ild*keiktrfnr*fi**iciq*yrftklvh***kss**ssnsthqrngr*n
*kkd*rn**ssnqedrrg*g*kevssw*engens*qgk*yr**srnvqs*ei*sh*ktll
wy**eeyetkedhhdc*kikncxwwyw*iqdr**tyeerfksske*ikncwtfkrff*kv
ktkgvki
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VHA378 (VHA378Q) /CSM/VH/VHA3-D/VHA378Q.Seq.d/                       1320   0.0
VHA530 (VHA530Q) /CSM/VH/VHA5-B/VHA530Q.Seq.d/                       1255   0.0
VFN895 (VFN895Q) /CSM/VF/VFN8-D/VFN895Q.Seq.d/                       1249   0.0
VHE308 (VHE308Q) /CSM/VH/VHE3-A/VHE308Q.Seq.d/                       1245   0.0
VHD642 (VHD642Q) /CSM/VH/VHD6-B/VHD642Q.Seq.d/                       1227   0.0
AHJ320 (AHJ320Q) /CSM/AH/AHJ3-A/AHJ320Q.Seq.d/                       1227   0.0
VFO355 (VFO355Q) /CSM/VF/VFO3-C/VFO355Q.Seq.d/                       1221   0.0
VHH246 (VHH246Q) /CSM/VH/VHH2-B/VHH246Q.Seq.d/                       1179   0.0
VHB317 (VHB317Q) /CSM/VH/VHB3-A/VHB317Q.Seq.d/                       1172   0.0
VHJ295 (VHJ295Q) /CSM/VH/VHJ2-D/VHJ295Q.Seq.d/                       1066   0.0
own update 2004.12.24
Homology vs DNA 

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

AR549455|AR549455.1 Sequence 4586 from patent US 6747137.          74   1e-18  6
AX488917|AX488917.1 Sequence 6217 from Patent WO02053728.          74   1e-16  6
DB747335|DB747335.1 Apis mellifera head cDNA, RIKEN full-length enriched library, clone:BH10068H24, 5' end partial sequence.    56   2e-13  5
BQ640813|BQ640813.1 TVEST006.B12 Tv30236_PT cDNA Library Trichomonas vaginalis cDNA 5' similar to NEUROSPORA CRASSA CONSERVED HYPOTHETICAL PROTEIN, mRNA sequence.    62   1e-12  2
BQ621473|BQ621473.1 TVEST006.B01 Tv30236_PT cDNA Library Trichomonas vaginalis cDNA 5', mRNA sequence.    62   1e-12  2
CB284695|CB284695.1 DF1483 Dermatophagoides farinae cDNA library Dermatophagoides farinae cDNA, mRNA sequence.    56   2e-11  4
EE133491|EE133491.1 SiJWH07ADU Lausanne fire ant library Solenopsis invicta cDNA, mRNA sequence.    46   3e-11  4
DT662586|DT662586.3 He_wd2a1_74D09_M13R Heliconius erato wing disk 2 Heliconius erato cDNA clone He_wd2a1_74D09 5' similar to UniRef90_UPI000051A2A9 Cluster related to UPI000051A2A9; PREDICTED: similar to CG8939-PA. Score = 386 bits (991), Expect = e-106, mRNA sequence.    44   4e-11  5
EL596939|EL596939.1 He_pwd_0169E02_M13R Heliconius erato pooled wing disc library Heliconius erato/himera mixed EST library cDNA clone He_pwd_0169E02 5' similar to UniRef90_UPI0000D56FDD Cluster: PREDICTED: similar to CG8939-PA castaneum Tribolium castaneum, E-value = 1e-103, mRNA sequence.    36   6e-09  5
AJ223010|AJ223010.1 Schizosaccharomyces pombe pmt2 gene.           46   1e-07  4
dna update 2007. 3.15
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54NX0) RecName: Full=rRNA methyltransferase 3 homolog;        ...   367   e-100
(Q4P6G5) RecName: Full=AdoMet-dependent rRNA methyltransferase S...   271   5e-71
(Q5ZKM1) RecName: Full=Putative rRNA methyltransferase 3;       ...   257   6e-67
(Q9P6V8) RecName: Full=AdoMet-dependent rRNA methyltransferase s...   255   3e-66
T48834(T48834)hypothetical protein 68B2.180 [imported] - Neurosp...   255   3e-66
(O42832) RecName: Full=AdoMet-dependent rRNA methyltransferase s...   251   3e-65
AP007166_278(AP007166|pid:none) Aspergillus oryzae RIB40 genomic...   250   1e-64
(Q5RAS1) RecName: Full=Putative rRNA methyltransferase 3;       ...   250   1e-64
AK027463_1(AK027463|pid:none) Homo sapiens cDNA FLJ14557 fis, cl...   250   1e-64
AB173423_1(AB173423|pid:none) Macaca fascicularis brain cDNA clo...   249   1e-64
protein update 2009. 6.26
PSORT 

 psg: 0.43  gvh: 0.44  alm: 0.43  top: 0.53  tms: 0.00  mit: 0.30  mip: 0.04
 nuc: 0.04  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 %: nuclear
	 28.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  8.0 %: mitochondrial
	  8.0 %: vesicles of secretory system
	  4.0 %: vacuolar

>> prediction for VHA378 is nuc
5' end seq. ID VHA378F
5' end seq. 
>VHA378F.Seq
AAAATATTTATTCCTGTATTAATAAATATAGATACACATATATATAAACTAAAATGGGTC
AAAAGAAAAAGAAGTTAGCCAAGGGTCGTTTAGATAAGTTTTACTATATGGCCAAAGAGC
AAGGTTATAGATCTCGTGCTGCTTTCAAATTAATTCAATTAAATAAAAAATACAATTTTT
TGGGTACCGCAAAAGCTTGTTTAGATCTTTGTGCTGCACCAGGTGGTTGGATGCAAGTTG
CATCAAAATATATGCCAGTTCAATCATTAATTGTTGGTGTAGATTTAGTACCAATTAGAC
AAGTTAGAAATTGTATTGGTTTAACAGAAGATATTACAACACAAAAGTGTAGAACAGAGA
TTAAAAAAGCATTGAAAACATGGAAAGTTGATGTATGTTTACATGATGGTGCACCAAATA
TGGGTACATCATGGGTACAAGATGCATATCAACAAGCGGAATTAACTTTACATGCATTAA
AGTTGGCAACTGAATTCCTTACTACTGGTGGTTGGTTTGTAACTAAAGTTTTCAGAGGCT
CAGATTATAATTCATTGATTTGGGTATTCAACAAACTCTTTAAAAAAGTTGAATCTACTA
AACCACCATCATCACGTAATGCATCAGCAGAGATNNNNNNNNNN
Length of 5' end seq. 644
3' end seq. ID VHA378Z
3' end seq. 
>VHA378Z.Seq
NNNNNNNNNNCAGTGCTGAATTTGGTAAACAAAAGAGTAAATATCAAAAGAATCCAACAT
TGGATGATAAAGATGATCAAGATGATGATGATGATAAAGGAATAGCATTAAAGGTTTCGA
AGAAGTACCAGTTCAAGAAGAGGTTGAATATGAATCAGACTCGGATGAAGATATTGATGA
TAAAATTAAAACTAAAGCATTGGGTGAATTCTTGATTAGAAAGAAATCAAGACAAGATTT
AATCGATGATTCATTTAATAAATATGCATTCAATGATACAGGTTTACCAAATTGGTTCAC
TGATGATGAAAATCGTCATAATAAAGCTCAAACTCCACTCACCAAAGAAATGGTCGATGA
AATTAGAAGAAAGATTAAAGAAATTGATGATCGTCCAATCAAGAAGATCGCAGAGGCTAA
GGCTAGAAAGAAGTATCGTCTTGGTAAGAAAATGGAGAAAACTCGTGACAAGGCAAGTAG
TATCGTTGATAATCCAGAAATGTCCAATCGTGAGAAATCTAAAGCCATTGAAAAACTTTA
CTCTGGTACTGATAAGAAGAATATGAAACCAAAGAAGATCATCATGATTGCTAAAAAATC
AAAAACTGCNGGTGGTGGTACTGGTAAATACAAGATCGTTGATAAACGTATGAAGAAAGA
TTTAAGAGCTCAAAAGAATAAATTAAAAACTGTTGGACGTTCAAAAGATTCTTCTAAAAA
GTCAAAACCAAGGGGGTAAAAATA
Length of 3' end seq. 744
Connected seq. ID VHA378P
Connected seq. 
>VHA378P.Seq
AAAATATTTATTCCTGTATTAATAAATATAGATACACATATATATAAACTAAAATGGGTC
AAAAGAAAAAGAAGTTAGCCAAGGGTCGTTTAGATAAGTTTTACTATATGGCCAAAGAGC
AAGGTTATAGATCTCGTGCTGCTTTCAAATTAATTCAATTAAATAAAAAATACAATTTTT
TGGGTACCGCAAAAGCTTGTTTAGATCTTTGTGCTGCACCAGGTGGTTGGATGCAAGTTG
CATCAAAATATATGCCAGTTCAATCATTAATTGTTGGTGTAGATTTAGTACCAATTAGAC
AAGTTAGAAATTGTATTGGTTTAACAGAAGATATTACAACACAAAAGTGTAGAACAGAGA
TTAAAAAAGCATTGAAAACATGGAAAGTTGATGTATGTTTACATGATGGTGCACCAAATA
TGGGTACATCATGGGTACAAGATGCATATCAACAAGCGGAATTAACTTTACATGCATTAA
AGTTGGCAACTGAATTCCTTACTACTGGTGGTTGGTTTGTAACTAAAGTTTTCAGAGGCT
CAGATTATAATTCATTGATTTGGGTATTCAACAAACTCTTTAAAAAAGTTGAATCTACTA
AACCACCATCATCACGTAATGCATCAGCAGAGAT----------CAGTGCTGAATTTGGT
AAACAAAAGAGTAAATATCAAAAGAATCCAACATTGGATGATAAAGATGATCAAGATGAT
GATGATGATAAAGGAATAGCATTAAAGGTTTCGAAGAAGTACCAGTTCAAGAAGAGGTTG
AATATGAATCAGACTCGGATGAAGATATTGATGATAAAATTAAAACTAAAGCATTGGGTG
AATTCTTGATTAGAAAGAAATCAAGACAAGATTTAATCGATGATTCATTTAATAAATATG
CATTCAATGATACAGGTTTACCAAATTGGTTCACTGATGATGAAAATCGTCATAATAAAG
CTCAAACTCCACTCACCAAAGAAATGGTCGATGAAATTAGAAGAAAGATTAAAGAAATTG
ATGATCGTCCAATCAAGAAGATCGCAGAGGCTAAGGCTAGAAAGAAGTATCGTCTTGGTA
AGAAAATGGAGAAAACTCGTGACAAGGCAAGTAGTATCGTTGATAATCCAGAAATGTCCA
ATCGTGAGAAATCTAAAGCCATTGAAAAACTTTACTCTGGTACTGATAAGAAGAATATGA
AACCAAAGAAGATCATCATGATTGCTAAAAAATCAAAAACTGCNGGTGGTGGTACTGGTA
AATACAAGATCGTTGATAAACGTATGAAGAAAGATTTAAGAGCTCAAAAGAATAAATTAA
AAACTGTTGGACGTTCAAAAGATTCTTCTAAAAAGTCAAAACCAAGGGGGTAAAAATA
Length of connected seq. 1368
Full length Seq ID -
Full length Seq. -
Length of full length seq. -