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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
VSF780
Library VS
(Link to library)
Clone ID VSF780
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U15146-1
Original site URL
Representative seq. ID VSF780P
(Link to Original site)
Representative DNA sequence 
>VSF780 (VSF780Q) /CSM/VS/VSF7-D/VSF780Q.Seq.d/
GGNAGTTTGATTACACTTAAATAAAGATGGTTAGCGTTAAAAAAGTCAAGAAATCACAAG
AAAACATTGGTTCTAAATTAGCCCTCGTCATGAAGAGTGGTAAATCCCAATTAGGTTACA
AATCAACCCTTAAAACCTTAAGAGCTGGTAAATCAAAATTAATTTTACTCGCTAGCAATT
TACCATCAATCCGTAGATCTGAAATCGAATACTACGCTATGTTAAGCAAAACCACCGTCC
ATTTATACTCAGGTAACAATGTTGACTTAGGTACTGCTTTAGGTCGTCACTACAGAGTCT
CTGTTATGTCAATTACCGATGCTGGTGACTCAGATATCTTAACTGCTTTAAACGCTAAAG
CTTAAATGTAAATTGAGTTATTAAATAAATACCTAANAAAAAAAXXXXXXXXXXCCACGC
GTCCCGGGAGTTTGATTACACTTAAATAAAGATGGTTAGCGTTAAAAAAGTCAAGAAATC
ACAAGAAAACATTGGTTCTAAATTAGCCCTCGTCATGAAGAGTGGTAAATCCCAATTAGG
TTACAAATCAACCCTTAAAACCTTAAGAGCTGGTAAATCAAAATTAATTTTACTCGCTAG
CAATTTACCATCAATCCGTAGATCTGAAATCGAATACTACGCTATGTTAAGCAAAACCAC
CGTCCATTTATACTCAGGTAACAATGTTGACTTAGGTACTGCTTTAGGTCGTCACTACAG
AGTCTCTGTTATGTCAATTACCGATGCTGGTGACTCAGATATCTTAACTGCTTTAAACGT
AAAGCTTAAATGTAAA
sequence update 2001. 3.22
Translated Amino Acid sequence 
xfdyt*ikmvsvkkvkksqenigsklalvmksgksqlgykstlktlragksklillasnl
psirrseieyyamlskttvhlysgnnvdlgtalgrhyrvsvmsitdagdsdiltalnaka
*m*IELLNKYLXKK---

---TRPGSLITLK*rwlalkksrnhkktlvln*pss*rvvnpn*vtnqplkp*elvnqn*
fyslaiyhqsvdlksnttlc*akppsiytqvtmlt*vll*vvttesllcqlpmlvtqis*
ll*t*slnv
Translated Amino Acid sequence (All Frames) 
Frame A:
gslitlk*rwlalkksrnhkktlvln*pss*rvvnpn*vtnqplkp*elvnqn*fyslai
yhqsvdlksnttlc*akppsiytqvtmlt*vll*vvttesllcqlpmlvtqis*ll*tlk
lkcklsy*int*xk---

---prvpgv*lhlnkdg*r*ksqeitrkhwf*isprheew*ipirlqinp*nlksw*iki
nftr*qftinp*i*nrilryvkqnhrpfilr*qc*lrycfrsslqslcyvnyrcw*lryl
ncfkrka*m*

Frame B:
xv*lhlnkdg*r*ksqeitrkhwf*isprheew*ipirlqinp*nlksw*ikinftr*qf
tinp*i*nrilryvkqnhrpfilr*qc*lrycfrsslqslcyvnyrcw*lrylncfkr*s
lnvn*vik*ipxkk---

---hasrefdyt*ikmvsvkkvkksqenigsklalvmksgksqlgykstlktlragkskl
illasnlpsirrseieyyamlskttvhlysgnnvdlgtalgrhyrvsvmsitdagdsdil
talnvklkck

Frame C:
xfdyt*ikmvsvkkvkksqenigsklalvmksgksqlgykstlktlragksklillasnl
psirrseieyyamlskttvhlysgnnvdlgtalgrhyrvsvmsitdagdsdiltalnaka
*m*IELLNKYLXKK---

---TRPGSLITLK*rwlalkksrnhkktlvln*pss*rvvnpn*vtnqplkp*elvnqn*
fyslaiyhqsvdlksnttlc*akppsiytqvtmlt*vll*vvttesllcqlpmlvtqis*
ll*t*slnv
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSF780 (VSF780Q) /CSM/VS/VSF7-D/VSF780Q.Seq.d/                        779   0.0
VHA463 (VHA463Q) /CSM/VH/VHA4-C/VHA463Q.Seq.d/                        779   0.0
VHA213 (VHA213Q) /CSM/VH/VHA2-A/VHA213Q.Seq.d/                        779   0.0
FC-AR22 (FC-AR22Q) /CSM/FC/FC-AR/FC-AR22Q.Seq.d/                      779   0.0
VFM680 (VFM680Q) /CSM/VF/VFM6-D/VFM680Q.Seq.d/                        757   0.0
SSH878 (SSH878Q) /CSM/SS/SSH8-D/SSH878Q.Seq.d/                        743   0.0
VSE215 (VSE215Q) /CSM/VS/VSE2-A/VSE215Q.Seq.d/                        688   0.0
FC-IC0858 (FC-IC0858Q) /CSM/FC-IC/FC-IC0858Q.Seq.d/                   456   e-127
VFN308 (VFN308Q) /CSM/VF/VFN3-A/VFN308Q.Seq.d/                         36   0.79
VFM875 (VFM875Q) /CSM/VF/VFM8-D/VFM875Q.Seq.d/                         36   0.79
own update 2004.12.25
Homology vs DNA 

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

AA841720|AA841720.1 MB3D6V6D07T3 Brugia malayi day 6 post-infection third stage larvae SAW96MLW-BmL3d6 Brugia malayi cDNA clone 3D6V6D07 5', mRNA sequence.    48  0.002  2
AJ223316|AJ223316.1 Lupinus luteus mRNA for ribosomal protein L30.    52  0.011  1
CA755907|CA755907.1 BR030031000_PLATE_A09_65_068.ab1 OA Oryza sativa (japonica cultivar-group) cDNA clone BR030031000_PLATE_A09_65_068.ab1 similar to 60S ribosomal protein L30, mRNA sequence.    50  0.043  1
AC122935|AC122935.2 Mus musculus chromosome UNK clone RP23-20E4, WORKING DRAFT SEQUENCE, 3 unordered pieces.    48  0.17  2
BQ641167|BQ641167.1 EST290 almond cDNA library Prunus dulcis cDNA 5' similar to ribosomal protein L30, mRNA sequence.    48  0.17  1
AC084053|AC084053.6 Mus Musculus Strain C57BL6/J chromosome 3 BAC, RP23-158F1, complete sequence.    48  0.17  1
BU572652|BU572652.1 PA__Ea0001H21f Almond developing seed Prunus dulcis cDNA clone PA__Ea0001H21f, mRNA sequence.    48  0.17  1
AZ590137|AZ590137.1 1M0399K06R Mouse 10kb plasmid UUGC1M library Mus musculus genomic clone UUGC1M0399K06 R, DNA sequence.    48  0.17  1
BU573578|BU573578.1 PA__Ea0004H03f Almond developing seed Prunus dulcis cDNA clone PA__Ea0004H03f, mRNA sequence.    48  0.17  1
AC115577|AC115577.2 Dictyostelium discoideum chromosome 2 map 4657875-4914984 strain AX4, complete sequence.    36  1.0  3
dna update 2003. 8.24
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q55BS9) RecName: Full=60S ribosomal protein L30;                     196   9e-49
EU302552_1(EU302552|pid:none) Lineus viridis ribosomal protein r...   141   2e-32
AY769300_1(AY769300|pid:none) Bombyx mori ribosomal protein L30 ...   137   5e-31
(P58375) RecName: Full=60S ribosomal protein L30;  &AF400193_1(A...   137   5e-31
(Q9UTP0) RecName: Full=60S ribosomal protein L30-2;  &AL110509_2...   136   6e-31
DQ411573_1(DQ411573|pid:none) Pteris vittata clone PVU18 ribosom...   136   8e-31
AF526198_1(AF526198|pid:none) Argopecten irradians isolate iolsa...   135   1e-30
DQ440259_1(DQ440259|pid:none) Aedes aegypti clone AET-3168 60S r...   135   1e-30
(P52808) RecName: Full=60S ribosomal protein L30-1; AltName: Ful...   135   2e-30
EF634720_1(EF634720|pid:none) Koerneria sp. RS1982 large subunit...   134   2e-30
protein update 2009. 3.22
PSORT 

 psg: 0.73  gvh: 0.21  alm: 0.66  top: 0.53  tms: 0.00  mit: 0.39  mip: 0.00
 nuc: 0.12  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
	 24.0 %: mitochondrial
	 16.0 %: cytoplasmic
	 12.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for VSF780 is nuc
5' end seq. ID VSF780F
5' end seq. 
>VSF780F.Seq
GGNAGTTTGATTACACTTAAATAAAGATGGTTAGCGTTAAAAAAGTCAAGAAATCACAAG
AAAACATTGGTTCTAAATTAGCCCTCGTCATGAAGAGTGGTAAATCCCAATTAGGTTACA
AATCAACCCTTAAAACCTTAAGAGCTGGTAAATCAAAATTAATTTTACTCGCTAGCAATT
TACCATCAATCCGTAGATCTGAAATCGAATACTACGCTATGTTAAGCAAAACCACCGTCC
ATTTATACTCAGGTAACAATGTTGACTTAGGTACTGCTTTAGGTCGTCACTACAGAGTCT
CTGTTATGTCAATTACCGATGCTGGTGACTCAGATATCTTAACTGCTTTAAACGCTAAAG
CTTAAATGTAAATTGAGTTATTAAATAAATACCTAANAAAAAAA----------
Length of 5' end seq. 404
3' end seq. ID VSF780Z
3' end seq. 
>VSF780Z.Seq
----------CCACGCGTCCCGGGAGTTTGATTACACTTAAATAAAGATGGTTAGCGTTA
AAAAAGTCAAGAAATCACAAGAAAACATTGGTTCTAAATTAGCCCTCGTCATGAAGAGTG
GTAAATCCCAATTAGGTTACAAATCAACCCTTAAAACCTTAAGAGCTGGTAAATCAAAAT
TAATTTTACTCGCTAGCAATTTACCATCAATCCGTAGATCTGAAATCGAATACTACGCTA
TGTTAAGCAAAACCACCGTCCATTTATACTCAGGTAACAATGTTGACTTAGGTACTGCTT
TAGGTCGTCACTACAGAGTCTCTGTTATGTCAATTACCGATGCTGGTGACTCAGATATCT
TAACTGCTTTAAACGTAAAGCTTAAATGTAAA
Length of 3' end seq. 382
Connected seq. ID VSF780P
Connected seq. 
>VSF780P.Seq
GGNAGTTTGATTACACTTAAATAAAGATGGTTAGCGTTAAAAAAGTCAAGAAATCACAAG
AAAACATTGGTTCTAAATTAGCCCTCGTCATGAAGAGTGGTAAATCCCAATTAGGTTACA
AATCAACCCTTAAAACCTTAAGAGCTGGTAAATCAAAATTAATTTTACTCGCTAGCAATT
TACCATCAATCCGTAGATCTGAAATCGAATACTACGCTATGTTAAGCAAAACCACCGTCC
ATTTATACTCAGGTAACAATGTTGACTTAGGTACTGCTTTAGGTCGTCACTACAGAGTCT
CTGTTATGTCAATTACCGATGCTGGTGACTCAGATATCTTAACTGCTTTAAACGCTAAAG
CTTAAATGTAAATTGAGTTATTAAATAAATACCTAANAAAAAAA----------CCACGC
GTCCCGGGAGTTTGATTACACTTAAATAAAGATGGTTAGCGTTAAAAAAGTCAAGAAATC
ACAAGAAAACATTGGTTCTAAATTAGCCCTCGTCATGAAGAGTGGTAAATCCCAATTAGG
TTACAAATCAACCCTTAAAACCTTAAGAGCTGGTAAATCAAAATTAATTTTACTCGCTAG
CAATTTACCATCAATCCGTAGATCTGAAATCGAATACTACGCTATGTTAAGCAAAACCAC
CGTCCATTTATACTCAGGTAACAATGTTGACTTAGGTACTGCTTTAGGTCGTCACTACAG
AGTCTCTGTTATGTCAATTACCGATGCTGGTGACTCAGATATCTTAACTGCTTTAAACGT
AAAGCTTAAATGTAAA
Length of connected seq. 786
Full length Seq ID -
Full length Seq. -
Length of full length seq. -