Browse Element(s) Details


Os.53927.1.S1_at

Description gb:AK108360.1
DB_XREF= gi:32993569
TID=Os.53927.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53927 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-142-C09, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-142-C09, full insert sequence.
FL= gb:AK100868.1 gb:AK108360.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g367607/11hypothetical protein
LOC_Os04g229905/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os11g378801/11NB-ARC domain containing protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g36730NANA1+20717930..20721104hypothetical protein
LOC_Os01g36740Os.53927.1.S2_at8/111+20734485..20736516expressed protein
LOC_Os01g36750NANA1+20738483..20739103retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g36760OsAffx.11356.1.S1_at11/111+20741163..20743109hypothetical protein
LOC_Os01g36760OsAffx.11356.1.S1_s_at11/111+20741163..20743109hypothetical protein
LOC_Os01g36760Os.53927.1.S1_at7/111+20741163..20743109hypothetical protein
LOC_Os01g36766Os.14491.2.S1_x_at1/111+20751517..20754472transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g36772NANA1+20754593..20756446transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g36780NANA1+20757851..20761182transposon protein, putative, CACTA, En/Spm sub-class

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Gene Ontology Classification
GO idTypeName
GO:0006952biological_processdefense response
GO:0009626biological_processhypersensitive response
GO:0009814biological_processdefense response to pathogen, incompatible interaction
GO:0005737cellular_componentcytoplasm
GO:0019897cellular_componentextrinsic to plasma membrane
GO:0000166molecular_functionnucleotide binding
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53927.1.S1_at--61--2671Chr01:20741510..20741633 (25 bp)
AAGCCCCAAAAACAGAGCACACAGA
LOC_Os01g36760
Os.53927.1.S1_at--318--1273Chr11:21951819..21951916 (24 bp)
AGATATGCTCTATTCATGCCCTTTA
LOC_Os11g37880
Os.53927.1.S1_at--742--10212Chr04:13028809..13028833 (25 bp)
TATTCATGCCCTTTATGACCTCATC
LOC_Os04g22990
Os.53927.1.S1_at--360--691Chr01:20741464..20741488 (25 bp)
ATGACCTCATCGCAACCTTCAGTAT
LOC_Os01g36760
Os.53927.1.S1_at--824--5151Chr01:20741453..20741477 (25 bp)
GCAACCTTCAGTATTTCTCAATGAG
LOC_Os01g36760
Os.53927.1.S1_at--828--2192Chr04:13028750..13028774 (25 bp)
ACAAATGTGGCTTCGGAGGATTGCT
LOC_Os04g22990
Os.53927.1.S1_at--672--2293Chr04:13028710..13028734 (25 bp)
AAATGTACACCGTATTTTGTGCATG
LOC_Os04g22990
Os.53927.1.S1_at--684--6891Chr01:20741035..20741059 (25 bp)
GTAAGCTTGGCATACCTAAATTTTG
NONE
Os.53927.1.S1_at--267--7992Chr04:13028344..13028368 (25 bp)
GGATGTCAATGCAATCAGTGCAATT
LOC_Os04g22990
Os.53927.1.S1_at--751--9011Chr01:20740988..20741012 (25 bp)
TGCAATTAACTGGACAAGCTTGACT
NONE
Os.53927.1.S1_at--418--2711Chr01:20740973..20740997 (25 bp)
AAGCTTGACTTTAAACCACCTAATG
NONE
Target Sequence 
AAGCCCCAAAAACAGAGCACACAGATATGCTCTATTCATGCCCTTTATGACCTCATCGCAACCTTCAGTATTTCTCAATG
AGAAGCTGTACACAAATGTGGCTTCGGAGGATTGCTGAAGATGCATAGGATAAATGTACACCGTATTTTGTGCATGTGGA
TTACAAACCAATTTGATACAAAGGCTGAAGCATTCAACATCCAAGGCAGCTATCTGAGTCTATCCAGTAGGGACGCTGAG
CATTTGCTTGACCTGCCATCACAAGGAGAAGAAATATTTGAACCACCAAAGACCAAGAATATGGACTTGTTTGATGAATT
CAAGACAGCATCTAAGCAAGGGGCACATATAAAATTATCTTCNTTGCAATAGTATTTTCAAACAAACAAAGGTATATATG
ACGACAATTTCATTCGCCGTTTTGTGCTCTTTGTGATCAATCGGTGTTTTCCTGTGCCCAACTACTCAAAGGTATGTAAG
CTTGGCATACCTAAATTTTGTANAGGATGTCAATGCAATCAGTGCAATTAACTGGACAAGCTTGACTTTAAACCACCTAA
TG

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.53927.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis