Browse Element(s) Details


Os.12400.4.S1_at

Description gb:CB646161
DB_XREF= gi:29641154
DB_XREF=OSJNEb08G16.r
CLONE=OSJNEb08G16
TID=Os.12400.4
CNT=85
FEA=FLmRNA
TIER=Stack
STK=8
UG=Os.12400 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-138-D06, full insert sequence
FL= gb:AK065108.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g3002011/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g29999NANA8+18295883..18297205NA
LOC_Os08g30010NANA8+18299898..18305602retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g30020Os.12400.4.S1_at11/118+18319856..18325328expressed protein
LOC_Os08g30020Os.12400.2.S1_x_at10/118+18319856..18325328expressed protein
LOC_Os08g30020Os.12400.1.S1_x_at1/118+18319856..18325328expressed protein
LOC_Os08g30030Os.8747.3.S1_x_at4/118+18328310..18328636hypothetical protein
LOC_Os08g30030Os.33750.2.S1_x_at2/118+18328310..18328636hypothetical protein
LOC_Os08g30040OsAffx.26070.3.S1_x_at11/118+18329699..18332722transposon protein, putative, unclassified
LOC_Os08g30040OsAffx.26070.2.S1_x_at11/118+18329699..18332722transposon protein, putative, unclassified
LOC_Os08g30040Os.49801.1.S1_s_at2/118+18329699..18332722transposon protein, putative, unclassified
LOC_Os08g30050Os.54774.1.S1_at2/118+18335512..18340294retrotransposon, putative, centromere-specific
LOC_Os08g30050Os.54774.1.S1_x_at2/118+18335512..18340294retrotransposon, putative, centromere-specific
LOC_Os08g30050Os.19099.1.S1_x_at1/118+18335512..18340294retrotransposon, putative, centromere-specific
LOC_Os08g30050OsAffx.25367.1.S1_at1/118+18335512..18340294retrotransposon, putative, centromere-specific
LOC_Os08g30060Os.10450.1.S1_at11/118+18341325..18347944proton pump interactor, putative, expressed
LOC_Os08g30070Os.24594.1.A1_s_at11/118+18348098..18353766expressed protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.12400.4.S1_at--538--8511Chr08:18324209..18324394 (25 bp)
TGGAATCCCTCCACAGGTCTCAAGT
LOC_Os08g30020
Os.12400.4.S1_at--55--8671Chr08:18324574..18324598 (25 bp)
TGTGGCCTTTTTTGCGGCGATTATT
LOC_Os08g30020
Os.12400.4.S1_at--96--6791Chr08:18324631..18324655 (25 bp)
GTTAGGGCGGGCATCACTCATTATC
LOC_Os08g30020
Os.12400.4.S1_at--365--391Chr08:18324643..18324667 (25 bp)
ATCACTCATTATCTTCATTCTGTCC
LOC_Os08g30020
Os.12400.4.S1_at--482--111Chr08:18324659..18324683 (25 bp)
ATTCTGTCCTTCATGATCTTCATCA
LOC_Os08g30020
Os.12400.4.S1_at--403--10551Chr08:18324677..18324700 (24 bp)
TTCATCAGCGCAATCTCACTAGGTG
LOC_Os08g30020
Os.12400.4.S1_at--760--451Chr08:18324689..18324804 (25 bp)
ATCTCACTAGGTGGAGTCGGCATCT
LOC_Os08g30020
Os.12400.4.S1_at--794--8031Chr08:18324792..18324816 (25 bp)
GGAGTCGGCATCTCCAACATGATTG
LOC_Os08g30020
Os.12400.4.S1_at--1092--5591Chr08:18324829..18324853 (25 bp)
GACACGAGTACATGGGTTTCGACAA
LOC_Os08g30020
Os.12400.4.S1_at--1149--9271Chr08:18324873..18324897 (25 bp)
TAAGGCTCAGGCTCACAAGGGAAAT
LOC_Os08g30020
Os.12400.4.S1_at--1093--10391Chr08:18325021..18325045 (25 bp)
TTATTGCCCGACAACTCTGGAGAGG
LOC_Os08g30020
Target Sequence 
TGGAATCCCTCCACAGGTCTCAAGTGCCACAGCCACCTTTGCAATGATGTTCTCATCTTCCATGTCTGTTGTTGAATACT
ACCTCTTGGACCGGTTCCCTGTGCCATATGCTCTTTTCTTCACCGTTGTGGCCTTTTTTGCGGCGATTATTGGACAGCAC
ATTGTAAGGAAGCTGATCAATTGGTTAGGGCGGGCATCACTCATTATCTTCATTCTGTCCTTCATGATCTTCATCAGCGC
AATCTCACTAGGTGGAGTCGGCATCTCCAACATGATTGGCAAGATTGCGCGACACGAGTACATGGGTTTCGACAACATCT
GCAATTATGATGTATAAGGCTCAGGCTCACAAGGGAAATATATGTGCAGTTCAGTGAATAGAACATTGTGATGTGGATTT
TTCAGATGTCAAATTGTAGCAAGTACAGATTGAAGCATAGGGGCATGCCGATCAATTTTTTTGCCTGTAATTTAAGTAAT
TATTATTGCCCGACAACTCTGGAGAGG

BLASTn GenBank NR

Expression Profiles Gene Chronologer
Gene Chronologer (Grouped)
Heterosis View
Gene Correlator (coexpression analysis)
SALK RiceGE
Rice MPSS  MPSS logo
RiceArray Coexpression Database
Miscellaneous SNP data between Minghui 63 and Zhenshan 97 from OryzaSNP project:
extend bp around Os.12400.4.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis