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
CHC160
Library CH
(Link to library)
Clone ID CHC160
Atlas ID -
NBRP ID -
dictyBase ID -
Link to Contig Contig-U16272-1
Original site URL
Representative seq. ID CHC160P
(Link to Original site)
Representative DNA sequence 
>CHC160 (CHC160Q) /CSM/CH/CHC1-C/CHC160Q.Seq.d/
CTAAACAACAATAACAATATGAGTCATCGTAAATTTGAAGCTCCACGTCACGGTAATCTC
GGTTTCAGACCAAGAAAGAGAGCCGCCAGACATCAAGGTAAAGTCAAGTCATTCCCAAAG
GATGACCGTACCCAAAAAGTCCACTTAACTGCATTCATGGGTTACAAAGCTGGTATGACT
CACGTTGTCAGAGATTTAGAAAAACCAGGTTCAAAGATGCACAAAAAAGAAATCGTTGAA
GCCGTCACCATCATTGAATGTCCACCAATGTACATTGTTGGTTTAGTTGGTTATGTTGAA
ACCGCTCAAGGTCTCAAAACCTACAAAACCGTCTGGGCTCAACATTTAAGTGATAACTTC
CGTAGAAGATTATACAAAAACTGGTACAAATCAAAATCAAAGAAAGCTTTCACCAAATAC
GTTAAACAATACGAAACTGAAGAAGGTAAAAAATCAATTGAAGCCTCTCTCCAAGCCATC
AAAAAGAGATGTTCAGTCGTCCGTGTCATTGCTCACACTCAAGTTCACAAATTAAAATTA
ACTCAGAAGAAAGCACACGTCCTTGAAATCCAAGTCAATGGTGGTTCAATCGTCGAAAAA
GTTAACTTTGCTGXXXXXXXXXXGGTGTAACCAAAGNTAAAGGGTTTCNATGGTGTCATT
AAAAGATGGGGTGTCCGTAAATTACCAAGAAAGACCCATAAAGGTTTAAGAAAGGTTGCC
TGTATTGGTGCATGGCATCCATCCCGTGTTAGTACCACCGTCCCAAGAGCTGGTCAACTC
GGTTACCATCATCGTGTCGAAAGAAACAAGAAGATTTACAGAATCGGTCAAGCTCAACCA
GAAGACGGTAAACAAATCTCAACCGGTAAGACTGAATTCGATTTAACTGAAAAGACTATC
AATCCAATGGGTGGTTTCGCTCACTACGGTATGGTTAAACATGAATTCTTAATGCTTAAA
GGTTGTGTTGCTGGTCCAAGAAAGAGAGCCTTAACCTTAAGAAAGAGTATCACCACTCAA
ACTGGTCGTGCTGCCCTCGAGAAAATCACTCTCAAATTCATCGATACCTCCAGCAAGTTT
GGTCACGGTCTTCATCAAACCGCTGAAGATAAGACTAAATATTTCGGCGTCAAGAAATCA
AGAT
sequence update 2002.10.25
Translated Amino Acid sequence 
LNNNNNMSHRKFEAPRHGNLGFRPRKRAARHQGKVKSFPKDDRTQKVHLTAFMGYKAGMT
HVVRDLEKPGSKMHKKEIVEAVTIIECPPMYIVGLVGYVETAQGLKTYKTVWAQHLSDNF
RRRLYKNWYKSKSKKAFTKYVKQYETEEGKKSIEASLQAIKKRCSVVRVIAHTQVHKLKL
TQKKAHVLEIQVNGGSIVEKVNFA---

---GVTKXKGFXWCH*kmgcp*itkkdp*rfkkgclywcmasipc*yhrpkswstrlpss
crkkqedlqnrssstrrr*tnlnr*d*irfn*kdyqsngwfrslryg*t*ilna*rlccw
skkeslnlkkeyhhsnwsccprenhsqihrylqqvwsrsssnr*r*d*ifrrqeik
Translated Amino Acid sequence (All Frames) 
Frame A:
LNNNNNMSHRKFEAPRHGNLGFRPRKRAARHQGKVKSFPKDDRTQKVHLTAFMGYKAGMT
HVVRDLEKPGSKMHKKEIVEAVTIIECPPMYIVGLVGYVETAQGLKTYKTVWAQHLSDNF
RRRLYKNWYKSKSKKAFTKYVKQYETEEGKKSIEASLQAIKKRCSVVRVIAHTQVHKLKL
TQKKAHVLEIQVNGGSIVEKVNFA---

---GVTKXKGFXWCH*kmgcp*itkkdp*rfkkgclywcmasipc*yhrpkswstrlpss
crkkqedlqnrssstrrr*tnlnr*d*irfn*kdyqsngwfrslryg*t*ilna*rlccw
skkeslnlkkeyhhsnwsccprenhsqihrylqqvwsrsssnr*r*d*ifrrqeik

Frame B:
*ttiti*vivnlklhvtvisvsdqereppdikvksshsqrmtvpkkst*lhswvtklv*l
tlsei*knqvqrctkkkslkpspslnvhqctllv*lvmlkplkvskptkpsglni*vits
vedytktgtnqnqrklspntlnntklkkvknqlkplskpskrdvqssvslltlkftn*n*
lrrkhtslksksmvvqsskkltll---

---v*pkxkgfxgvikrwgvrklprkthkglrkvacigawhpsrvsttvpragqlgyhhr
vernkkiyrigqaqpedgkqistgktefdltektinpmggfahygmvkheflmlkgcvag
prkraltlrksittqtgraalekitlkfidtsskfghglhqtaedktkyfgvkksr

Frame C:
kqq*qyess*i*sstsr*srfqtkkesrqtsr*sqvipkg*pypksplncihglqswyds
rcqrfrktrfkdaqkrnr*srhhh*mstnvhcwfswlc*nrsrsqnlqnrlgstfk**lp
*kiiqklvqikikesfhqir*tirn*rr*kin*slspshqkemfsrpchcshsssqikin
seestrp*npsqwwfnrrks*lc---

---cnqx*rvsmvslkdgvsvnyqerpikv*erlpvlvhgihpvlvppsqelvnsvtiiv
sketrrftesvklnqktvnksqpvrlnsi*lkrlsiqwvvslttvwlnmns*clkvvllv
qerep*p*ervsplklvvlpsrkslsnssippaslvtvfikplkirlnisasrnqd
Homology vs CSM-cDNA 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

CHC160 (CHC160Q) /CSM/CH/CHC1-C/CHC160Q.Seq.d/                       2196   0.0
VHA485 (VHA485Q) /CSM/VH/VHA4-D/VHA485Q.Seq.d/                       1207   0.0
VFO585 (VFO585Q) /CSM/VF/VFO5-D/VFO585Q.Seq.d/                       1207   0.0
VFM836 (VFM836Q) /CSM/VF/VFM8-B/VFM836Q.Seq.d/                       1207   0.0
VFM313 (VFM313Q) /CSM/VF/VFM3-A/VFM313Q.Seq.d/                       1207   0.0
VFM115 (VFM115Q) /CSM/VF/VFM1-A/VFM115Q.Seq.d/                       1207   0.0
VFL796 (VFL796Q) /CSM/VF/VFL7-D/VFL796Q.Seq.d/                       1207   0.0
VFL509 (VFL509Q) /CSM/VF/VFL5-A/VFL509Q.Seq.d/                       1207   0.0
VFL379 (VFL379Q) /CSM/VF/VFL3-D/VFL379Q.Seq.d/                       1207   0.0
VFK206 (VFK206Q) /CSM/VF/VFK2-A/VFK206Q.Seq.d/                       1207   0.0
own update 2004.12.25
Homology vs DNA 

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

L08391|L08391.1 Dictyostelium discoideum ribosomal protein (L3) gene, complete cds.  1166   0.0    4
AX489150|AX489150.1 Sequence 6450 from Patent WO02053728.          78   1e-42  9
Z74971|Z74971.1 S.cerevisiae chromosome XV reading frame ORF YOR063w.    70   6e-35  8
J01351|J01351.1 S.cerevisiae ribosomal protein L3 (tcm1) gene.     62   4e-34  8
Z70678|Z70678.1 S.cerevisiae chromosome XV DNA, 54.7 kb region.    70   7e-27  9
CR380953|CR380953.1 Candida glabrata strain CBS138 chromosome G complete sequence.    66   4e-21  15
BE641342|BE641342.1 Cri2_3_A04_SP6 Ceratopteris Spore Library Ceratopteris richardii cDNA clone Cri2_3_A04 5', mRNA sequence.    76   1e-19  3
AL424946|AL424946.1 clone BA0AB002D01 of library BA0AB from strain CLIB 210 of  Kluyveromyces lactis.    66   5e-19  5
AX765804|AX765804.1 Sequence 13 from Patent WO03008440.            74   6e-19  4
CQ804190|CQ804190.1 Sequence 601 from Patent WO2004035798.         74   6e-19  4
dna update 2004. 9.16
Homology vs Protein 

                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

(P34113) RecName: Full=60S ribosomal protein L3;  &JC4254(JC4254...   728   0.0
AM471157_1(AM471157|pid:none) Vitis vinifera contig VV78X211407....   500   e-140
EF144245_1(EF144245|pid:none) Populus trichocarpa clone PX0011_L...   498   e-139
DQ241849_1(DQ241849|pid:none) Solanum tuberosum clone 187E04 rib...   497   e-139
AM452874_1(AM452874|pid:none) Vitis vinifera contig VV78X187512....   495   e-138
EF146052_1(EF146052|pid:none) Populus trichocarpa clone WS0115_D...   494   e-138
AJ720292_1(AJ720292|pid:none) Gallus gallus mRNA for hypothetica...   493   e-138
BC158279_1(BC158279|pid:none) Xenopus tropicalis hypothetical pr...   493   e-138
EF145479_1(EF145479|pid:none) Populus trichocarpa clone WS01125_...   492   e-137
(P39023) RecName: Full=60S ribosomal protein L3; AltName: Full=H...   491   e-137
protein update 2009. 3.29
PSORT 

 psg: 0.52  gvh: 0.21  alm: 0.36  top: 0.53  tms: 0.00  mit: 0.35  mip: 0.06
 nuc: 0.31  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 

	 68.0 %: nuclear
	 16.0 %: cytoplasmic
	  8.0 %: cytoskeletal
	  4.0 %: mitochondrial
	  4.0 %: plasma membrane

>> prediction for CHC160 is nuc
5' end seq. ID CHC160F
5' end seq. 
>CHC160F.Seq
CTAAACAACAATAACAATATGAGTCATCGTAAATTTGAAGCTCCACGTCACGGTAATCTC
GGTTTCAGACCAAGAAAGAGAGCCGCCAGACATCAAGGTAAAGTCAAGTCATTCCCAAAG
GATGACCGTACCCAAAAAGTCCACTTAACTGCATTCATGGGTTACAAAGCTGGTATGACT
CACGTTGTCAGAGATTTAGAAAAACCAGGTTCAAAGATGCACAAAAAAGAAATCGTTGAA
GCCGTCACCATCATTGAATGTCCACCAATGTACATTGTTGGTTTAGTTGGTTATGTTGAA
ACCGCTCAAGGTCTCAAAACCTACAAAACCGTCTGGGCTCAACATTTAAGTGATAACTTC
CGTAGAAGATTATACAAAAACTGGTACAAATCAAAATCAAAGAAAGCTTTCACCAAATAC
GTTAAACAATACGAAACTGAAGAAGGTAAAAAATCAATTGAAGCCTCTCTCCAAGCCATC
AAAAAGAGATGTTCAGTCGTCCGTGTCATTGCTCACACTCAAGTTCACAAATTAAAATTA
ACTCAGAAGAAAGCACACGTCCTTGAAATCCAAGTCAATGGTGGTTCAATCGTCGAAAAA
GTTAACTTTGCTGNNNNNNNNNN
Length of 5' end seq. 623
3' end seq. ID CHC160Z
3' end seq. 
>CHC160Z.Seq
NNNNNNNNNNGGTGTAACCAAAGNTAAAGGGTTTCNATGGTGTCATTAAAAGATGGGGTG
TCCGTAAATTACCAAGAAAGACCCATAAAGGTTTAAGAAAGGTTGCCTGTATTGGTGCAT
GGCATCCATCCCGTGTTAGTACCACCGTCCCAAGAGCTGGTCAACTCGGTTACCATCATC
GTGTCGAAAGAAACAAGAAGATTTACAGAATCGGTCAAGCTCAACCAGAAGACGGTAAAC
AAATCTCAACCGGTAAGACTGAATTCGATTTAACTGAAAAGACTATCAATCCAATGGGTG
GTTTCGCTCACTACGGTATGGTTAAACATGAATTCTTAATGCTTAAAGGTTGTGTTGCTG
GTCCAAGAAAGAGAGCCTTAACCTTAAGAAAGAGTATCACCACTCAAACTGGTCGTGCTG
CCCTCGAGAAAATCACTCTCAAATTCATCGATACCTCCAGCAAGTTTGGTCACGGTCTTC
ATCAAACCGCTGAAGATAAGACTAAATATTTCGGCGTCAAGAAATCAAGAT
Length of 3' end seq. 531
Connected seq. ID CHC160P
Connected seq. 
>CHC160P.Seq
CTAAACAACAATAACAATATGAGTCATCGTAAATTTGAAGCTCCACGTCACGGTAATCTC
GGTTTCAGACCAAGAAAGAGAGCCGCCAGACATCAAGGTAAAGTCAAGTCATTCCCAAAG
GATGACCGTACCCAAAAAGTCCACTTAACTGCATTCATGGGTTACAAAGCTGGTATGACT
CACGTTGTCAGAGATTTAGAAAAACCAGGTTCAAAGATGCACAAAAAAGAAATCGTTGAA
GCCGTCACCATCATTGAATGTCCACCAATGTACATTGTTGGTTTAGTTGGTTATGTTGAA
ACCGCTCAAGGTCTCAAAACCTACAAAACCGTCTGGGCTCAACATTTAAGTGATAACTTC
CGTAGAAGATTATACAAAAACTGGTACAAATCAAAATCAAAGAAAGCTTTCACCAAATAC
GTTAAACAATACGAAACTGAAGAAGGTAAAAAATCAATTGAAGCCTCTCTCCAAGCCATC
AAAAAGAGATGTTCAGTCGTCCGTGTCATTGCTCACACTCAAGTTCACAAATTAAAATTA
ACTCAGAAGAAAGCACACGTCCTTGAAATCCAAGTCAATGGTGGTTCAATCGTCGAAAAA
GTTAACTTTGCTG----------GGTGTAACCAAAGNTAAAGGGTTTCNATGGTGTCATT
AAAAGATGGGGTGTCCGTAAATTACCAAGAAAGACCCATAAAGGTTTAAGAAAGGTTGCC
TGTATTGGTGCATGGCATCCATCCCGTGTTAGTACCACCGTCCCAAGAGCTGGTCAACTC
GGTTACCATCATCGTGTCGAAAGAAACAAGAAGATTTACAGAATCGGTCAAGCTCAACCA
GAAGACGGTAAACAAATCTCAACCGGTAAGACTGAATTCGATTTAACTGAAAAGACTATC
AATCCAATGGGTGGTTTCGCTCACTACGGTATGGTTAAACATGAATTCTTAATGCTTAAA
GGTTGTGTTGCTGGTCCAAGAAAGAGAGCCTTAACCTTAAGAAAGAGTATCACCACTCAA
ACTGGTCGTGCTGCCCTCGAGAAAATCACTCTCAAATTCATCGATACCTCCAGCAAGTTT
GGTCACGGTCTTCATCAAACCGCTGAAGATAAGACTAAATATTTCGGCGTCAAGAAATCA
AGAT
Length of connected seq. 1134
Full length Seq ID -
Full length Seq. -
Length of full length seq. -