NBDC - アーカイブトップ - ヘルプ
データベースの説明 | データ項目の説明 | 利用許諾 | ヘルプ
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
NBDC - LSDB Archive
Description of this DB | Description of data items | Download | License
Dicty_cDB
Contig List | Clone List | cDNA Library List
Atlas
Atlas | Atlas Image List
VSG490
Library VS
(Link to library)
Clone ID VSG490
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06449-1
Original site URL
Representative seq. ID VSG490P
(Link to Original site)
Representative DNA sequence 
>VSG490 (VSG490Q) /CSM/VS/VSG4-D/VSG490Q.Seq.d/
GAACGTTGAACTCTACACCCCACGTAAGTGCTCTGCCACCAACCGTTTAATCACCGCCAA
GGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTATCTACAATGG
TGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATCCGATGCTGC
TCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATTCTAAATTGACTCATTTTT
AGATATTTTATAAAATAAAAAAAGCTTTTTAAAAAAAAAAXXXXXXXXXXGAACGTTGAA
CTCTACACCCCACGTAAGTGCTCTGCCACCAACCGTTTAATCACCGCCAAGGATCACGCT
TCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTATCTACAATGGTGAACAAACC
ATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATCCGATGCTGCTCTCAACAGA
TTAGCCCAANAAAAAGGTTTCTTAAAATCATTTCTAAATTGACT
sequence update 2001. 3.22
Translated Amino Acid sequence 
nvelytprkcsatnrlitakdhasvqinighvnaegiyngeqtifafcgflrnngqsdaa
lnrlaqqkgflksf*idsfldil*NKKSFLKKK---

---NVELYTPRKCSATNRLITAKDHASVQINIGHVNAEGIYNGEQTIFAFCGFLRNNGQS
DAALNRLAQXKGFLKSFLN*
Translated Amino Acid sequence (All Frames) 
Frame A:
er*tlhpt*vlchqpfnhrqgsrfrpn*hwsrqc*rylqw*tnhlcflrfpp*qwsircc
sqqisptkrflkiiln*lifryfik*kklfkkk---

---er*tlhpt*vlchqpfnhrqgsrfrpn*hwsrqc*rylqw*tnhlcflrfpp*qwsi
rccsqqispxkrflkiisklt

Frame B:
nvelytprkcsatnrlitakdhasvqinighvnaegiyngeqtifafcgflrnngqsdaa
lnrlaqqkgflksf*idsfldil*NKKSFLKKK---

---NVELYTPRKCSATNRLITAKDHASVQINIGHVNAEGIYNGEQTIFAFCGFLRNNGQS
DAALNRLAQXKGFLKSFLN*

Frame C:
tlnstphvsalpptv*sppritlpskltlvtsmlkvstmvnkpsllsavssvtmvnpmll
std*pnkkvs*nhsklthf*ifykikkaf*kk---

---tlnstphvsalpptv*sppritlpskltlvtsmlkvstmvnkpsllsavssvtmvnp
mllstd*pxkkvs*nhf*id
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK496 (VSK496Q) /CSM/VS/VSK4-D/VSK496Q.Seq.d/                        496   e-139
VSK316 (VSK316Q) /CSM/VS/VSK3-A/VSK316Q.Seq.d/                        496   e-139
VSJ740 (VSJ740Q) /CSM/VS/VSJ7-B/VSJ740Q.Seq.d/                        496   e-139
VSJ632 (VSJ632Q) /CSM/VS/VSJ6-B/VSJ632Q.Seq.d/                        496   e-139
VSJ513 (VSJ513Q) /CSM/VS/VSJ5-A/VSJ513Q.Seq.d/                        496   e-139
VSI702 (VSI702Q) /CSM/VS/VSI7-A/VSI702Q.Seq.d/                        496   e-139
VSH862 (VSH862Q) /CSM/VS/VSH8-C/VSH862Q.Seq.d/                        496   e-139
VSH268 (VSH268Q) /CSM/VS/VSH2-C/VSH268Q.Seq.d/                        496   e-139
VSH266 (VSH266Q) /CSM/VS/VSH2-C/VSH266Q.Seq.d/                        496   e-139
VSH221 (VSH221Q) /CSM/VS/VSH2-A/VSH221Q.Seq.d/                        496   e-139
own update 2001.11.13
Homology vs DNA 

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

CA903142|CA903142.1 PCSC20414 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    50  8e-05  2
CA903144|CA903144.1 PCSC21037 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    50  8e-05  2
CA903143|CA903143.1 PCSC20975 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    50  9e-04  2
AV437905|AV437905.1 Porphyra yezoensis cDNA clone:PS028d08_r, 5' end.    54  0.002  1
BE586942|BE586942.1 WHE0507_A04_B07ZR Secale cereale aluminum-stressed root tip cDNA library Secale cereale cDNA clone WHE0507_A04_B07, mRNA sequence.    54  0.002  1
CB376945|CB376945.1 Hb07H09 Latex Lambda TriplEX cDNA Library Hevea brasiliensis cDNA clone Hb07H09 5', mRNA sequence.    52  0.007  1
CA903132|CA903132.1 PCSC13732 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    42  0.010  2
CA903131|CA903131.1 PCSC13701 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    42  0.012  2
CA903133|CA903133.1 PCSC13909 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    42  0.013  2
CA897254|CA897254.1 PCEP03464 Scarlet Runner Bean Embryo-Proper Region Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    42  0.013  2
dna update 2003. 8.25
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54BN4) RecName: Full=40S ribosomal protein S21;                     152   4e-36
GM961446_1(GM961446|pid:none) Sequence 8400 from Patent WO200814...   101   1e-20
GM961448_1(GM961448|pid:none) Sequence 8402 from Patent WO200814...   100   2e-20
GM961348_1(GM961348|pid:none) Sequence 8302 from Patent WO200814...   100   3e-20
FB334991_1(FB334991|pid:none) Sequence 2517 from Patent WO200711...    99   8e-20
GM961454_1(GM961454|pid:none) Sequence 8408 from Patent WO200814...    99   8e-20
EF145835_1(EF145835|pid:none) Populus trichocarpa clone WS0113_L...    99   8e-20
GM961450_1(GM961450|pid:none) Sequence 8404 from Patent WO200814...    99   8e-20
AM471391_2(AM471391|pid:none) Vitis vinifera contig VV78X082935....    98   1e-19
EF145799_1(EF145799|pid:none) Populus trichocarpa clone WS0113_H...    97   2e-19
protein update 2009. 3.23
PSORT 

 psg: 0.55  gvh: 0.33  alm: 0.53  top: 0.53  tms: 0.00  mit: 0.39  mip: 0.05
 nuc: 0.00  erl: 0.00  erm: 0.20  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 

	 40.0 %: mitochondrial
	 36.0 %: cytoplasmic
	 16.0 %: nuclear
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for VSG490 is mit
5' end seq. ID VSG490F
5' end seq. 
>VSG490F.Seq
GAACGTTGAACTCTACACCCCACGTAAGTGCTCTGCCACCAACCGTTTAATCACCGCCAA
GGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTATCTACAATGG
TGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATCCGATGCTGC
TCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATTCTAAATTGACTCATTTTT
AGATATTTTATAAAATAAAAAAAGCTTTTTAAAAAAAAAA----------
Length of 5' end seq. 280
3' end seq. ID VSG490Z
3' end seq. 
>VSG490Z.Seq
----------GAACGTTGAACTCTACACCCCACGTAAGTGCTCTGCCACCAACCGTTTAA
TCACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTA
TCTACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAAT
CCGATGCTGCTCTCAACAGATTAGCCCAANAAAAAGGTTTCTTAAAATCATTTCTAAATT
GACT
Length of 3' end seq. 234
Connected seq. ID VSG490P
Connected seq. 
>VSG490P.Seq
GAACGTTGAACTCTACACCCCACGTAAGTGCTCTGCCACCAACCGTTTAATCACCGCCAA
GGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTATCTACAATGG
TGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATCCGATGCTGC
TCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATTCTAAATTGACTCATTTTT
AGATATTTTATAAAATAAAAAAAGCTTTTTAAAAAAAAAA----------GAACGTTGAA
CTCTACACCCCACGTAAGTGCTCTGCCACCAACCGTTTAATCACCGCCAAGGATCACGCT
TCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTATCTACAATGGTGAACAAACC
ATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATCCGATGCTGCTCTCAACAGA
TTAGCCCAANAAAAAGGTTTCTTAAAATCATTTCTAAATTGACT
Length of connected seq. 514
Full length Seq ID -
Full length Seq. -
Length of full length seq. -