Browse Element(s) Details


Os.52857.1.S1_at

Description gb:AK069616.1
DB_XREF= gi:32979640
TID=Os.52857.1
CNT=4
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.52857 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023021C02, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023021C02, full insert sequence.
FL= gb:AK069616.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g1363011/11RNA recognition motif family protein, expressed
LOC_Os05g136501/11RNA recognition motif family protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g13580Os.5101.1.S1_at11/115+7512956..7513896EF hand family protein, expressed
LOC_Os05g13590OsAffx.26866.1.S1_at11/115+7515488..7519847hypothetical protein
LOC_Os05g13590OsAffx.14673.1.S1_at10/115+7515488..7519847hypothetical protein
LOC_Os05g13600NANA5+7520740..7522875retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g13610OsAffx.22947.1.S1_x_at9/115+7523385..7527101retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g13610OsAffx.22947.2.S1_x_at7/115+7523385..7527101retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g13610OsAffx.22947.3.S1_x_at6/115+7523385..7527101retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g13610OsAffx.22947.5.S1_x_at3/115+7523385..7527101retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g13620Os.32021.1.S1_at11/115+7531814..7533163Glycine-rich RNA-binding protein GRP2A, putative, expressed
LOC_Os05g13630Os.52857.1.S1_at11/115+7537387..7538520RNA recognition motif family protein, expressed
LOC_Os05g13640NANA5+7539030..7539443hypothetical protein
LOC_Os05g13650Os.52857.1.S1_at1/115+7541950..7542710RNA recognition motif family protein
LOC_Os05g13660OsAffx.14674.1.S1_at11/115+7545695..7546972hypothetical protein
LOC_Os05g13670OsAffx.26868.1.S1_at11/115+7551512..7552506hypothetical protein
LOC_Os05g13680OsAffx.26869.1.S1_at10/115+7559810..7561315hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0006396biological_processRNA processing
GO:0007623biological_processcircadian rhythm
GO:0009409biological_processresponse to cold
GO:0005634cellular_componentnucleus
GO:0005739cellular_componentmitochondrion
GO:0009507cellular_componentchloroplast
GO:0000166molecular_functionnucleotide binding
GO:0003723molecular_functionRNA binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.52857.1.S1_at--156--1851Chr05:7537602..7537626 (25 bp)
ACGAGCAAACCCTCATGGACTACTT
LOC_Os05g13630
Os.52857.1.S1_at--189--411Chr05:7537643..7538003 (25 bp)
ATCAGTGCCGAGATCGCTTGGGACA
LOC_Os05g13630
Os.52857.1.S1_at--913--10612Chr05:7542579..7542603 (25 bp)
TTCGGGTTCGTCAACTTCGAGGACA
LOC_Os05g13650
Os.52857.1.S1_at--436--5891Chr05:7538208..7538232 (25 bp)
GAGCGGAGAAGACTCTACCTACCTA
LOC_Os05g13630
Os.52857.1.S1_at--1162--9951Chr05:7538235..7538259 (25 bp)
TACCCTAAGCTATCTATGCTGCAGA
LOC_Os05g13630
Os.52857.1.S1_at--225--631Chr05:7538250..7538274 (25 bp)
ATGCTGCAGATCTACTAGCTAGTTT
LOC_Os05g13630
Os.52857.1.S1_at--879--4811Chr05:7538267..7538291 (25 bp)
GCTAGTTTTAGTCATTCGTCGTGTT
LOC_Os05g13630
Os.52857.1.S1_at--183--7951Chr05:7538363..7538387 (25 bp)
GGATATGCAAGCTTAGGGCCTTATT
LOC_Os05g13630
Os.52857.1.S1_at--1146--8711Chr05:7538423..7538447 (25 bp)
TGTAATCATCAATTGCAGTCTGCAC
LOC_Os05g13630
Os.52857.1.S1_at--626--3831Chr05:7538449..7538473 (25 bp)
CTGCAGCACGTACCTGAGTGTGTGT
LOC_Os05g13630
Os.52857.1.S1_at--60--6771Chr05:7538496..7538520 (25 bp)
GTTAAGAATGACTCTATCTGCTGCC
LOC_Os05g13630
Target Sequence 
ACGAGCAAACCCTCATGGACTACTTCGCCGACTACGGCGCCATCAGTGCCGAGATCGCTTGGGACAGTGAGATGGGGAGG
CCACGCGGGNTTCGGGTTCGTCAACTTCGAGGACAACGAGTCGGNTGAACGCCGCCATCCACGGCATGAACGGNCCAGGA
CATCGGCGGCCGCAAGGTCACCGTCGCGCGGGCCCAGATGCGCCCCCGCCGCTGGAGGGCGTGACCGCGCCGCCGGCGGA
CGGCCGGCCGGCGGCGAGGAGGTCGACCTGGATGAGCGGAGAAGACTCTACCTACCTACCTACCCTAAGCTATCTATGCT
GCAGATCTACTAGCTAGTTTTAGTCATTCGTCGTGTTGGTAGTTTGGTTAATTAGGGTTTAAGCGGTGGATGCTTAATTA
ATTAATCAGTCTCTGTTGGTAATCTCCTGGATATGCAAGCTTAGGGCCTTATTAGGATATGTTGTTTAATTAGGTGTGTG
TTTATGCTTGTAATCATCAATTGCAGTCTGCACTCTGCAGCACGTACCTGAGTGTGTGTAAGTTTGATGGCTAGCGTTTA
TGTTAAGAATGACTCTATCTGCTGCC

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.52857.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis