Browse Element(s) Details


Os.53649.1.S1_at

Description gb:AK073746.1
DB_XREF= gi:32983769
TID=Os.53649.1
CNT=4
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53649 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033068N16, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033068N16, full insert sequence.
FL= gb:AK073746.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g3448010/11Splicing factor 3B subunit 5, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g34420OsAffx.26000.1.S1_at2/118+21472829..21477232retrotransposon protein, putative, unclassified
LOC_Os08g34430OsAffx.29506.1.S1_x_at11/118+21479244..21479987hypothetical protein
LOC_Os08g34440OsAffx.19542.3.S1_x_at5/118+21486600..21490508retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g34450OsAffx.29506.2.S1_at11/118+21491884..21492597hypothetical protein
LOC_Os08g34460Os.56957.1.S1_at11/118+21494202..21495262senescence-associated protein DH, putative, expressed
LOC_Os08g34470OsAffx.29507.1.S1_at11/118+21498120..21499066hypothetical protein
LOC_Os08g34480Os.53649.1.S1_at10/118+21499282..21503457Splicing factor 3B subunit 5, putative, expressed
LOC_Os08g34490OsAffx.19542.3.S1_x_at7/118+21505171..21508882retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g34490OsAffx.29506.1.S1_x_at3/118+21505171..21508882retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g34490OsAffx.9949.1.S1_at1/118+21505171..21508882retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g34490OsAffx.29506.2.S1_at1/118+21505171..21508882retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g34500OsAffx.29508.1.S1_at1/118+21510757..21513825expressed protein
LOC_Os08g34510OsAffx.17329.1.S1_s_at11/118+21520515..21521304expressed protein

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Gene Ontology Classification
GO idTypeName
GO:0000398biological_processnuclear mRNA splicing, via spliceosome
GO:0006397biological_processmRNA processing
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53649.1.S1_at--91--3471Chr08:21501326..21501350 (25 bp)
CAGGGCATGCTGACTTGAATCGATT
LOC_Os08g34480
Os.53649.1.S1_at--68--8651Chr08:21501173..21501197 (25 bp)
TGGGCACTATCCAATGCTGGCATAT
LOC_Os08g34480
Os.53649.1.S1_at--887--4711Chr08:21501158..21501182 (25 bp)
GCTGGCATATTTTTCCATTGCTGAG
LOC_Os08g34480
Os.53649.1.S1_at--316--2451Chr08:21499636..21499660 (25 bp)
AAAATGCTACTTCCGTGTGGTCTGC
LOC_Os08g34480
Os.53649.1.S1_at--1068--8591Chr08:21499619..21499643 (25 bp)
TGGTCTGCCTCCTGAGAGAGACGAA
LOC_Os08g34480
Os.53649.1.S1_at--837--7371Chr08:21499564..21499588 (25 bp)
GTGTTACTGCAACTACTGGAACCTA
LOC_Os08g34480
Os.53649.1.S1_at--174--3711Chr08:21499490..21499514 (25 bp)
CTAGCCACCTACTACTACTATGTAA
LOC_Os08g34480
Os.53649.1.S1_at--871--751Chr08:21499471..21499495 (25 bp)
ATGTAAGACTCTGTCCATCTTGAAC
LOC_Os08g34480
Os.53649.1.S1_at--495--9451Chr08:21499398..21499422 (25 bp)
TCGGCGCATGTGTGTAACGGATCTT
LOC_Os08g34480
Os.53649.1.S1_at--992--10111Chr08:21499323..21499347 (25 bp)
TATGTTTGCATAAGCTCCTTGCCGC
LOC_Os08g34480
Os.53649.1.S1_at--923--2031Chr08:21499267..21499291 (25 bp)
ACTATTTGCTATATCGGCTACGTGC
NONE
Target Sequence 
CAGGGCATGCTGACTTGAATCGATTTGAATGGGCAGTAAACATCCAAAGGGATAGCTATGCATCCTATATTGGGCACTAT
CCAATGCTGGCATATTTTTCCATTGCTGAGAATGAATCAATTGGAAGAGAGCGTTACAATTTTATGCAGAAAATGCTACT
TCCGTGTGGTCTGCCTCCTGAGAGAGACGAAGATTGAGGTGGCCTTCGGGTCTGGCGTTCAGTGTTACTGCAACTACTGG
AACCTAGGGTTCAGTATCAGTTTGATATCCAAAGCAAGATCAAACTAATCTTTGCCTAGCCACCTACTACTACTATGTAA
GACTCTGTCCATCTTGAACATCTGAANCACTCTGTGTACCCTTTTCGAACATGTTCATCAGTAATGTTCGGCGCATGTGT
GTAACGGATCTTTTAGTTAAGGTGAATGTTGNNGGACAAAATGTTTCTGGAGCGATCATTCATATGTTTGCATAAGCTCC
TTGCCGCTGCAAATATGGCATATTAGAAAAATATCACTACTATTTGCTATATCGGCTACGTGC

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.53649.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis