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
AFO236
Library AF
(Link to library)
Clone ID AFO236
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16377-1
Original site URL
Representative seq. ID AFO236Z
(Link to Original site)
Representative DNA sequence 
>AFO236 (AFO236Q) /CSM/AF/AFO2-B/AFO236Q.Seq.d/
XXXXXXXXXXTTAAATCAAACTCGTGTAAGTGGTCAACAAGGTCCCTATCCAATCAAGTT
ATTCTACACTTCAAATATTCCAATCATTCTTCAAAGTGCACTCGTTAGCAATCTTTATTT
CATCTCTCAATTANTGNATCGTCGTTTCCCANATAACATTTTGGTAAACTTATTTGGTGC
TTGGAGAACCAGTGAATATTCACAACAAATGATTCCAGTCTCTGGTNTCACCTATTACAT
CAGCTCCCCAAATAATATGAGCGCTGTTTTGGCCGATCCATTCCATGCCCTCTTTTACAT
CACCTTTATGTTGACAAGTTGTGCTCTCTTCTCCAAAGTTTGGATCGAAGTTAGTGGTTC
CTCTGCTCGTGACGTTGCTAAGCAACTCAAAGATCAACAAATGACCATGAAAGGTCATCG
TGATACCTCTGTCATCAAGGAACTCAATCGTTATATTCCAACCGCTGCCGCTTTTGGTGG
TCTCTGTATTGGTGCTCTCACTGTCGTCGCCGATTTCATGGGTGCCATCGGTTCNGGTAC
TGGTATTTTATTAGCTGTCACTATCATCTATCAANACTTTGAAACCTTTGTTAAAGAACA
ACAAGAACNTTACTGGTGGTATTGGTGGTCNTTTCTAAAATAAATAAAAAAAAAAATTTA
AATTTAAAAAAAG
sequence update 2001. 6. 1
Translated Amino Acid sequence 
---NQTRVSGQQGPYPIKLFYTSNIPIILQSALVSNLYFISQLXXRRFPXNILVNLFGAW
RTSEYSQQMIPVSGXTYYISSPNNMSAVLADPFHALFYITFMLTSCALFSKVWIEVSGSS
ARDVAKQLKDQQMTMKGHRDTSVIKELNRYIPTAAAFGGLCIGALTVVADFMGAIGSGTG
ILLAVTIIYQXFETFVKEQQEXYWWYWWSFLK*ikkki*i*kk
Translated Amino Acid sequence (All Frames) 
Frame A:
---*iklv*vvnkvpiqssystlqifqsffkvhslaifisslnxxivvsxitfw*tylvl
gepvnihnk*fqslvspitsapqii*alfwpihsmpsftsplc*qvvlsspkfgsklvvp
llvtllsnskink*p*kviviplssrnsivifqplpllvvsvlvlslsspiswvpsvxvl
vfy*lslssixtlkpllknnknxtggiggxf*nk*kkkfkfkk


Frame B:
---ksnsckwstrslsnqvilhfkysnhsskctr*qslfhlsixxssfpx*hfgkliwcl
enq*ifttndsslwxhllhqlpk*yercfgrsipcpllhhlyvdklcsllqsldrs*wfl
cs*rc*atqrstndherss*ylchqgtqslysnrcrfwwslywcshcrrrfhgchrfxyw
yfischyhlsxl*nlc*rttrtllvvlvvxskinkkknlnlkk


Frame C:
---NQTRVSGQQGPYPIKLFYTSNIPIILQSALVSNLYFISQLXXRRFPXNILVNLFGAW
RTSEYSQQMIPVSGXTYYISSPNNMSAVLADPFHALFYITFMLTSCALFSKVWIEVSGSS
ARDVAKQLKDQQMTMKGHRDTSVIKELNRYIPTAAAFGGLCIGALTVVADFMGAIGSGTG
ILLAVTIIYQXFETFVKEQQEXYWWYWWSFLK*ikkki*i*kk
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

AFO236 (AFO236Q) /CSM/AF/AFO2-B/AFO236Q.Seq.d/                       1193   0.0
AFI684 (AFI684Q) /CSM/AF/AFI6-D/AFI684Q.Seq.d/                       1158   0.0
AFI657 (AFI657Q) /CSM/AF/AFI6-C/AFI657Q.Seq.d/                       1148   0.0
AFN640 (AFN640Q) /CSM/AF/AFN6-B/AFN640Q.Seq.d/                       1136   0.0
AFN163 (AFN163Q) /CSM/AF/AFN1-C/AFN163Q.Seq.d/                       1134   0.0
SFE855 (SFE855Q) /CSM/SF/SFE8-C/SFE855Q.Seq.d/                       1126   0.0
AFL739 (AFL739Q) /CSM/AF/AFL7-B/AFL739Q.Seq.d/                       1126   0.0
AFD243 (AFD243Q) /CSM/AF/AFD2-B/AFD243Q.Seq.d/                       1126   0.0
AFF306 (AFF306Q) /CSM/AF/AFF3-A/AFF306Q.Seq.d/                       1124   0.0
AFL792 (AFL792Q) /CSM/AF/AFL7-D/AFL792Q.Seq.d/                       1120   0.0
own update 2009. 4. 4
Homology vs DNA 

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

BQ853432|BQ853432.1 QGB20H22.yg.ab1 QG_ABCDI lettuce salinas Lactuca sativa cDNA clone QGB20H22, mRNA sequence.    72  5e-18  3
BQ995344|BQ995344.1 QGF9L22.yg.ab1 QG_EFGHJ lettuce serriola Lactuca sativa cDNA clone QGF9L22, mRNA sequence.    72  2e-17  3
BM393451|BM393451.1 50072-2-1-B09.f.1 Chilcoat/Turkewitz cDNA (large fraction) Tetrahymena thermophila cDNA, mRNA sequence.    88  6e-15  2
BM392463|BM392463.1 50071-2-1-B09.f.1 Chilcoat/Turkewitz cDNA (small fraction) Tetrahymena thermophila cDNA, mRNA sequence.    88  6e-15  2
CD435276|CD435276.1 EL01N0357H09.b Endosperm_3 Zea mays cDNA, mRNA sequence.    50  2e-13  4
CD438793|CD438793.1 EL01N0517D05.b Endosperm_5 Zea mays cDNA, mRNA sequence.    50  3e-13  4
CD436518|CD436518.1 EL01N0358B07.g Endosperm_3 Zea mays cDNA, mRNA sequence.    50  3e-13  4
BG320398|BG320398.1 Zm03_12g12_A Zm03_AAFC_ECORC_cold_stressed_maize_seedlings Zea mays cDNA clone Zm03_12g12, mRNA sequence.    50  3e-13  4
BG320332|BG320332.1 Zm03_12b06_A Zm03_AAFC_ECORC_cold_stressed_maize_seedlings Zea mays cDNA clone Zm03_12b06, mRNA sequence.    50  3e-13  4
CF195105|CF195105.1 USDA-FP_105000-027 Adult Glassy-winged Sharpshooter (WHHc) Homalodisca coagulata cDNA clone WHHC-002_F03 5', mRNA sequence.    84  3e-12  1
dna update 2003. 9.14
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(Q54XK2) RecName: Full=Protein transport protein Sec61 subunit a...   366   e-100
AC004481_8(AC004481|pid:none) Arabidopsis thaliana chromosome 2 ...   292   5e-78
EF676421_1(EF676421|pid:none) Picea sitchensis clone WS02736_J13...   292   7e-78
AK100597_1(AK100597|pid:none) Oryza sativa Japonica Group cDNA c...   291   2e-77
BT055508_1(BT055508|pid:none) Zea mays full-length cDNA clone ZM...   290   3e-77
EF147330_1(EF147330|pid:none) Populus trichocarpa clone WS0122_K...   290   3e-77
AY087495_1(AY087495|pid:none) Arabidopsis thaliana clone 36037 m...   287   2e-76
AY044237_1(AY044237|pid:none) Hordeum vulgare Sec61 alpha subuni...   285   6e-76
AF161718_1(AF161718|pid:none) Triticum aestivum Sec61p (sec61) m...   285   6e-76
AC121241_9(AC121241|pid:none) Medicago truncatula clone mth2-4n3...   285   8e-76
protein update 2009. 4.26
PSORT 

 psg: 0.71  gvh: 0.55  alm: 0.31  top: 0.57  tms: 0.20  mit: 0.49  mip: 0.10
 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: 1.00  m_ : 0.00 

	 28.0 %: endoplasmic reticulum
	 24.0 %: plasma membrane
	 16.0 %: nuclear
	 12.0 %: vacuolar
	  8.0 %: mitochondrial
	  4.0 %: cytoskeletal
	  4.0 %: Golgi
	  4.0 %: cytoplasmic

>> prediction for AFO236 is end
5' end seq. ID -
5' end seq. -
Length of 5' end seq. -
3' end seq. ID AFO236Z
3' end seq. 
>AFO236Z.Seq
----------TTAAATCAAACTCGTGTAAGTGGTCAACAAGGTCCCTATCCAATCAAGTT
ATTCTACACTTCAAATATTCCAATCATTCTTCAAAGTGCACTCGTTAGCAATCTTTATTT
CATCTCTCAATTANTGNATCGTCGTTTCCCANATAACATTTTGGTAAACTTATTTGGTGC
TTGGAGAACCAGTGAATATTCACAACAAATGATTCCAGTCTCTGGTNTCACCTATTACAT
CAGCTCCCCAAATAATATGAGCGCTGTTTTGGCCGATCCATTCCATGCCCTCTTTTACAT
CACCTTTATGTTGACAAGTTGTGCTCTCTTCTCCAAAGTTTGGATCGAAGTTAGTGGTTC
CTCTGCTCGTGACGTTGCTAAGCAACTCAAAGATCAACAAATGACCATGAAAGGTCATCG
TGATACCTCTGTCATCAAGGAACTCAATCGTTATATTCCAACCGCTGCCGCTTTTGGTGG
TCTCTGTATTGGTGCTCTCACTGTCGTCGCCGATTTCATGGGTGCCATCGGTTCNGGTAC
TGGTATTTTATTAGCTGTCACTATCATCTATCAANACTTTGAAACCTTTGTTAAAGAACA
ACAAGAACNTTACTGGTGGTATTGGTGGTCNTTTCTAAAATAAATAAAAAAAAAAATTTA
AATTTAAAAAAAG
Length of 3' end seq. 663
Connected seq. ID -
Connected seq. -
Length of connected seq. -
Full length Seq ID -
Full length Seq. -
Length of full length seq. -