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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
VSK496
Library VS
(Link to library)
Clone ID VSK496
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06449-1
Original site URL
Representative seq. ID VSK496P
(Link to Original site)
Representative DNA sequence 
>VSK496 (VSK496Q) /CSM/VS/VSK4-D/VSK496Q.Seq.d/
ATATAAAATGGACTCCAAGAACGTTGAACTCTACACCCCACGTAAGTGCTCTGCCACCAA
CCGTTTAATCACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGC
TGAAGGTATCTACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAA
TGGTCAATCCGATGCTGCTCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATT
CTAAATTGACTCATTTTTAGATATTTTATAAAATAAAAAAAGCTTTTTAAAAAAAAAAXX
XXXXXXXXCAATATCATATAAAATGGACTCCAAGAACGTTGAACTCTACACCCCACGTAA
GTGCTCTGCCACCAACCGTTTAATCACCGCCAAGGATCACGCTTCCGTCCAAATTAACAT
TGGTCACGTCAATGCTGAAGGTATCTACAATGGTGAACAAACCATCTTTGCTTTCTGCGG
TTTCCTCCGTAACAATGGTCAATCCGATGCTGCTCTCAACAGATTAGCCCAACAAAAAGG
TTTCTTAAAATCATTCTAAATTGACTCTTTTTAGATATTTTATAAAAAAAAAAAG
sequence update 2001. 3.22
Translated Amino Acid sequence 
ykmdsknvelytprkcsatnrlitakdhasvqinighvnaegiyngeqtifafcgflrnn
gqsdaalnrlaqqkgflksf*idsfldil*NKKSFLKKK---

---ISYKMDSKNVELYTPRKCSATNRLITAKDHASVQINIGHVNAEGIYNGEQTIFAFCG
FLRNNGQSDAALNRLAQQKGFLKSF*idsf*ifykkkk
Translated Amino Acid sequence (All Frames) 
Frame A:
i*nglqer*tlhpt*vlchqpfnhrqgsrfrpn*hwsrqc*rylqw*tnhlcflrfpp*q
wsirccsqqisptkrflkiiln*lifryfik*kklfkkk---

---qyhikwtprtlnstphvsalpptv*sppritlpskltlvtsmlkvstmvnkpsllsa
vssvtmvnpmllstd*pnkkvs*nhskltlfryfikkk

Frame B:
ykmdsknvelytprkcsatnrlitakdhasvqinighvnaegiyngeqtifafcgflrnn
gqsdaalnrlaqqkgflksf*idsfldil*NKKSFLKKK---

---nii*nglqer*tlhpt*vlchqpfnhrqgsrfrpn*hwsrqc*rylqw*tnhlcflr
fpp*qwsirccsqqisptkrflkiiln*lfldil*kkk

Frame C:
ikwtprtlnstphvsalpptv*sppritlpskltlvtsmlkvstmvnkpsllsavssvtm
vnpmllstd*pnkkvs*nhsklthf*ifykikkaf*kk---

---ISYKMDSKNVELYTPRKCSATNRLITAKDHASVQINIGHVNAEGIYNGEQTIFAFCG
FLRNNGQSDAALNRLAQQKGFLKSF*idsf*ifykkkk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK496 (VSK496Q) /CSM/VS/VSK4-D/VSK496Q.Seq.d/                        545   e-154
VSK316 (VSK316Q) /CSM/VS/VSK3-A/VSK316Q.Seq.d/                        529   e-149
VSI702 (VSI702Q) /CSM/VS/VSI7-A/VSI702Q.Seq.d/                        529   e-149
VSH268 (VSH268Q) /CSM/VS/VSH2-C/VSH268Q.Seq.d/                        529   e-149
VSH266 (VSH266Q) /CSM/VS/VSH2-C/VSH266Q.Seq.d/                        523   e-148
VSD431 (VSD431Q) /CSM/VS/VSD4-B/VSD431Q.Seq.d/                        523   e-148
VSJ632 (VSJ632Q) /CSM/VS/VSJ6-B/VSJ632Q.Seq.d/                        517   e-146
VSD593 (VSD593Q) /CSM/VS/VSD5-D/VSD593Q.Seq.d/                        515   e-145
VSC515 (VSC515Q) /CSM/VS/VSC5-A/VSC515Q.Seq.d/                        515   e-145
VSF747 (VSF747Q) /CSM/VS/VSF7-B/VSF747Q.Seq.d/                        509   e-143
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  1e-04  2
CA903144|CA903144.1 PCSC21037 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    50  1e-04  2
CA903143|CA903143.1 PCSC20975 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    50  0.001  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  0.008  1
CA903132|CA903132.1 PCSC13732 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    42  0.012  2
CA903131|CA903131.1 PCSC13701 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    42  0.015  2
CA903133|CA903133.1 PCSC13909 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    42  0.016  2
CA897254|CA897254.1 PCEP03464 Scarlet Runner Bean Embryo-Proper Region Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    42  0.017  2
dna update 2003. 7.30
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54BN4) RecName: Full=40S ribosomal protein S21;                     160   2e-38
GM961446_1(GM961446|pid:none) Sequence 8400 from Patent WO200814...   101   2e-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   4e-20
BT062080_1(BT062080|pid:none) Zea mays full-length cDNA clone ZM...   100   4e-20
FB334991_1(FB334991|pid:none) Sequence 2517 from Patent WO200711...   100   5e-20
EF145835_1(EF145835|pid:none) Populus trichocarpa clone WS0113_L...   100   5e-20
GM961372_1(GM961372|pid:none) Sequence 8326 from Patent WO200814...    99   6e-20
GM961454_1(GM961454|pid:none) Sequence 8408 from Patent WO200814...    99   6e-20
(Q9SMI2) RecName: Full=40S ribosomal protein S21;  &AJ011718_1(A...    99   8e-20
protein update 2009. 3.26
PSORT 

 psg: 0.55  gvh: 0.33  alm: 0.53  top: 0.53  tms: 0.00  mit: 0.29  mip: 0.00
 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 %: cytoplasmic
	 36.0 %: nuclear
	 16.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for VSK496 is cyt
5' end seq. ID VSK496F
5' end seq. 
>VSK496F.Seq
ATATAAAATGGACTCCAAGAACGTTGAACTCTACACCCCACGTAAGTGCTCTGCCACCAA
CCGTTTAATCACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGC
TGAAGGTATCTACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAA
TGGTCAATCCGATGCTGCTCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATT
CTAAATTGACTCATTTTTAGATATTTTATAAAATAAAAAAAGCTTTTTAAAAAAAAAA--
--------
Length of 5' end seq. 298
3' end seq. ID VSK496Z
3' end seq. 
>VSK496Z.Seq
----------CAATATCATATAAAATGGACTCCAAGAACGTTGAACTCTACACCCCACGT
AAGTGCTCTGCCACCAACCGTTTAATCACCGCCAAGGATCACGCTTCCGTCCAAATTAAC
ATTGGTCACGTCAATGCTGAAGGTATCTACAATGGTGAACAAACCATCTTTGCTTTCTGC
GGTTTCCTCCGTAACAATGGTCAATCCGATGCTGCTCTCAACAGATTAGCCCAACAAAAA
GGTTTCTTAAAATCATTCTAAATTGACTCTTTTTAGATATTTTATAAAAAAAAAAAG
Length of 3' end seq. 287
Connected seq. ID VSK496P
Connected seq. 
>VSK496P.Seq
ATATAAAATGGACTCCAAGAACGTTGAACTCTACACCCCACGTAAGTGCTCTGCCACCAA
CCGTTTAATCACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGC
TGAAGGTATCTACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAA
TGGTCAATCCGATGCTGCTCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATT
CTAAATTGACTCATTTTTAGATATTTTATAAAATAAAAAAAGCTTTTTAAAAAAAAAA--
--------CAATATCATATAAAATGGACTCCAAGAACGTTGAACTCTACACCCCACGTAA
GTGCTCTGCCACCAACCGTTTAATCACCGCCAAGGATCACGCTTCCGTCCAAATTAACAT
TGGTCACGTCAATGCTGAAGGTATCTACAATGGTGAACAAACCATCTTTGCTTTCTGCGG
TTTCCTCCGTAACAATGGTCAATCCGATGCTGCTCTCAACAGATTAGCCCAACAAAAAGG
TTTCTTAAAATCATTCTAAATTGACTCTTTTTAGATATTTTATAAAAAAAAAAAG
Length of connected seq. 585
Full length Seq ID -
Full length Seq. -
Length of full length seq. -