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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
VSK123
Library VS
(Link to library)
Clone ID VSK123
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U06449-1
Original site URL
Representative seq. ID VSK123P
(Link to Original site)
Representative DNA sequence 
>VSK123 (VSK123Q) /CSM/VS/VSK1-A/VSK123Q.Seq.d/
CACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTAT
CTACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATC
CGATGCTGCTCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATTCTAAATTGA
CTCATTTTTAGATATTTTATAAAATAAAAAAAGCTTTTTAAAAAAAAAAXXXXXXXXXXC
ACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTATC
TACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATCC
GATGCTGCTCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATTCTAAATTGAC
TCATTTTTAGATATTTT
sequence update 2001. 3.22
Translated Amino Acid sequence 
takdhasvqinighvnaegiyngeqtifafcgflrnngqsdaalnrlaqqkgflksf*id
sfldil*NKKSFLKKK---

---TAKDHASVQINIGHVNAEGIYNGEQTIFAFCGFLRNNGQSDAALNRLAQQKGFLKSF
*idsfldi
Translated Amino Acid sequence (All Frames) 
Frame A:
hrqgsrfrpn*hwsrqc*rylqw*tnhlcflrfpp*qwsirccsqqisptkrflkiiln*
lifryfik*kklfkkk---

---hrqgsrfrpn*hwsrqc*rylqw*tnhlcflrfpp*qwsirccsqqisptkrflkii
ln*lifryf

Frame B:
takdhasvqinighvnaegiyngeqtifafcgflrnngqsdaalnrlaqqkgflksf*id
sfldil*NKKSFLKKK---

---TAKDHASVQINIGHVNAEGIYNGEQTIFAFCGFLRNNGQSDAALNRLAQQKGFLKSF
*idsfldi

Frame C:
ppritlpskltlvtsmlkvstmvnkpsllsavssvtmvnpmllstd*pnkkvs*nhsklt
hf*ifykikkaf*kk---

---ppritlpskltlvtsmlkvstmvnkpsllsavssvtmvnpmllstd*pnkkvs*nhs
klthf*if
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

VSK496 (VSK496Q) /CSM/VS/VSK4-D/VSK496Q.Seq.d/                        394   e-109
VSK316 (VSK316Q) /CSM/VS/VSK3-A/VSK316Q.Seq.d/                        394   e-109
VSK123 (VSK123Q) /CSM/VS/VSK1-A/VSK123Q.Seq.d/                        394   e-109
VSJ740 (VSJ740Q) /CSM/VS/VSJ7-B/VSJ740Q.Seq.d/                        394   e-109
VSJ632 (VSJ632Q) /CSM/VS/VSJ6-B/VSJ632Q.Seq.d/                        394   e-109
VSJ513 (VSJ513Q) /CSM/VS/VSJ5-A/VSJ513Q.Seq.d/                        394   e-109
VSI702 (VSI702Q) /CSM/VS/VSI7-A/VSI702Q.Seq.d/                        394   e-109
VSH862 (VSH862Q) /CSM/VS/VSH8-C/VSH862Q.Seq.d/                        394   e-109
VSH669 (VSH669Q) /CSM/VS/VSH6-C/VSH669Q.Seq.d/                        394   e-109
VSH268 (VSH268Q) /CSM/VS/VSH2-C/VSH268Q.Seq.d/                        394   e-109
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.    46  8e-04  2
CA903144|CA903144.1 PCSC21037 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    46  8e-04  2
CA903143|CA903143.1 PCSC20975 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    46  0.008  2
AL404493|AL404493.1 T3 end of clone AT0AA016F09 of library AT0AA from strain CBS 4311 of Saccharomyces servazzii.    40  0.074  2
CA903132|CA903132.1 PCSC13732 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    38  0.095  2
CA903131|CA903131.1 PCSC13701 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    38  0.11  2
CA903133|CA903133.1 PCSC13909 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    38  0.12  2
CA897254|CA897254.1 PCEP03464 Scarlet Runner Bean Embryo-Proper Region Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    38  0.13  2
CA897250|CA897250.1 PCEP01910 Scarlet Runner Bean Embryo-Proper Region Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    38  0.13  2
CA903122|CA903122.1 PCSC08188 Scarlet Runner Bean Suspensor Region TriplEx2 Phaseolus coccineus cDNA 5' similar to 40S ribosomal protein S21, mRNA sequence.    38  0.14  2
dna update 2003. 7.28
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54BN4) RecName: Full=40S ribosomal protein S21;                     118   5e-26
GM961446_1(GM961446|pid:none) Sequence 8400 from Patent WO200814...    73   3e-12
GM961448_1(GM961448|pid:none) Sequence 8402 from Patent WO200814...    73   3e-12
GM961348_1(GM961348|pid:none) Sequence 8302 from Patent WO200814...    72   6e-12
GM961450_1(GM961450|pid:none) Sequence 8404 from Patent WO200814...    70   2e-11
GM961466_1(GM961466|pid:none) Sequence 8420 from Patent WO200814...    69   4e-11
EF145799_1(EF145799|pid:none) Populus trichocarpa clone WS0113_H...    69   5e-11
GM961374_1(GM961374|pid:none) Sequence 8328 from Patent WO200814...    69   5e-11
(Q9SMI2) RecName: Full=40S ribosomal protein S21;  &AJ011718_1(A...    69   5e-11
EF145835_1(EF145835|pid:none) Populus trichocarpa clone WS0113_L...    69   5e-11
protein update 2009. 3.25
PSORT 

 psg: 0.62  gvh: 0.40  alm: 0.53  top: 0.53  tms: 0.00  mit: 0.27  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 %: nuclear
	 32.0 %: cytoplasmic
	 20.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: peroxisomal

>> prediction for VSK123 is nuc
5' end seq. ID VSK123F
5' end seq. 
>VSK123F.Seq
CACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTAT
CTACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATC
CGATGCTGCTCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATTCTAAATTGA
CTCATTTTTAGATATTTTATAAAATAAAAAAAGCTTTTTAAAAAAAAAA----------
Length of 5' end seq. 229
3' end seq. ID VSK123Z
3' end seq. 
>VSK123Z.Seq
----------CACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATG
CTGAAGGTATCTACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACA
ATGGTCAATCCGATGCTGCTCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCAT
TCTAAATTGACTCATTTTTAGATATTTT
Length of 3' end seq. 198
Connected seq. ID VSK123P
Connected seq. 
>VSK123P.Seq
CACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTAT
CTACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATC
CGATGCTGCTCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATTCTAAATTGA
CTCATTTTTAGATATTTTATAAAATAAAAAAAGCTTTTTAAAAAAAAAA----------C
ACCGCCAAGGATCACGCTTCCGTCCAAATTAACATTGGTCACGTCAATGCTGAAGGTATC
TACAATGGTGAACAAACCATCTTTGCTTTCTGCGGTTTCCTCCGTAACAATGGTCAATCC
GATGCTGCTCTCAACAGATTAGCCCAACAAAAAGGTTTCTTAAAATCATTCTAAATTGAC
TCATTTTTAGATATTTT
Length of connected seq. 427
Full length Seq ID -
Full length Seq. -
Length of full length seq. -