Browse Element(s) Details


Os.52238.1.S1_at

Description gb:AK065808.1
DB_XREF= gi:32975826
TID=Os.52238.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.52238 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J013038M23, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J013038M23, full insert sequence.
FL= gb:AK065808.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os12g054507/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g436306/11transposon protein, putative, Pong sub-class
LOC_Os09g017506/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g319206/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g260704/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g089204/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g192704/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os11g128504/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g058303/11hypothetical protein
LOC_Os03g407603/11hypothetical protein
LOC_Os01g689903/11retrotransposon, putative, centromere-specific
LOC_Os04g453903/11transposon protein, putative, unclassified
LOC_Os02g199243/11tyrosine/nicotianamine aminotransferases family protein, expressed
LOC_Os10g214303/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g138902/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g285002/11retrotransposon, putative, centromere-specific
LOC_Os02g073702/11retrotransposon protein, putative, unclassified
LOC_Os04g024602/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g144702/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g213802/11retrotransposon protein, putative, unclassified
LOC_Os08g026602/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g219302/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g224001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g324801/11retrotransposon protein, putative, unclassified
LOC_Os12g250501/11retrotransposon protein, putative, unclassified
LOC_Os02g376541/11Lecithin:cholesterol acyltransferase family protein, expressed
LOC_Os02g286901/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g020201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g386201/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os12g05440Os.51923.1.S1_at11/1112+2466931..2468702Cytochrome P450 family protein, expressed
LOC_Os12g05450Os.52238.1.S1_at7/1112+2492295..2498687retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g05450Os.49936.2.A1_at3/1112+2492295..2498687retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g05450Os.33601.3.S1_x_at1/1112+2492295..2498687retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g05450OsAffx.828.1.S1_x_at1/1112+2492295..2498687retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g05450OsAffx.15708.1.S1_at1/1112+2492295..2498687retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g05460NANA12+2500495..2502244transposon protein, putative, Mutator sub-class
LOC_Os12g05470OsAffx.7490.1.S1_at11/1112+2505940..2506512Plastocyanin-like domain containing protein
LOC_Os12g05480Os.51923.1.S1_at3/1112+2507911..2508183hypothetical protein
LOC_Os12g05490NANA12+2508934..2514637retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g05500OsAffx.1647.1.S1_at1/1112+2515221..2518171retrotransposon protein, putative, unclassified
LOC_Os12g05510OsAffx.19506.1.S1_at11/1112+2520695..2522452expressed protein

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Gene Ontology Classification
GO idTypeName
GO:0001560biological_processregulation of cell growth by extracellular stimulus
GO:0006629biological_processlipid metabolism
GO:0009058biological_processbiosynthesis
GO:0009684biological_processindoleacetic acid biosynthesis
GO:0004607molecular_functionphosphatidylcholine-sterol O-acyltransferase activity
GO:0008483molecular_functiontransaminase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.52238.1.S1_at--443--17918Chr09:5548944..5548968 (25 bp)
ACCGTTTCACAAAGAAATGCCGAAG
NONE
Os.52238.1.S1_at--799--59715Chr09:5548977..5549001 (25 bp)
GAGACAATTTGCAAGTAGGGTTTTC
NONE
Os.52238.1.S1_at--444--96522Chr11:5719915..5720367 (25 bp)
TCAGAAAACTTGTCCTTACGGTTTG
NONE
Os.52238.1.S1_at--574--108734Chr11:5719945..5719969 (25 bp)
TTGGCTCAACCTACAGTCAAGTTGG
NONE
Os.52238.1.S1_at--490--17529Chr11:5719953..5719977 (25 bp)
ACCTACAGTCAAGTTGGCTCTGATA
NONE
Os.52238.1.S1_at--102--56191Chr12:7583337..7583361 (25 bp)
GACAAGTAATAAACAGTTCCAAACG
NONE
Os.52238.1.S1_at--876--535270Chr12:3332343..3332367 (25 bp)
GAAGAGGCACTTAGTCCTCACACCG
NONE
Os.52238.1.S1_at--133--113157Chr12:13437963..13437987 (25 bp)
AGTCCTCACACCGAAACAAAAGCAG
NONE
Os.52238.1.S1_at--996--149243Chr12:6180786..6180810 (25 bp)
AGCAGCGGAAAAAGGCGATCCTAGC
NONE
Os.52238.1.S1_at--858--769240Chr12:1797637..1797661 (25 bp)
GGGTCTGAGCCTTGGTCCTCTAACT
NONE
Os.52238.1.S1_at--890--1083130Chr12:21168451..21168475 (25 bp)
TTGGTCCTCTAACTCCATCTTCAGC
NONE
Target Sequence 
ACCGTTTCACAAAGAAATGCCGAAGGGCGAGAGGAGACAATTTGCAAGTAGGGTTTTCAGAAAACTTGTCCTTACGGTTT
GACCATTTGGCTCAACCTACAGTCAAGTTGGCTCTGATACCACTTTGTCACGCCCAGAAATTTAGCCCAAATTTCCAGAC
TATTTTGTGTATTAAATCCCTGTCCAGGACCAGCCAGGGTACACAAAACGACAAGTAATAAACAGTTCCAAACGTAAATA
AAGCGTAAAATACTTACAGAAGAGGCACTTAGTCCTCACACCGAAACAAAAGCAGCAGCAGCGGAAAAAGGCGATCCTAG
CGGGGCTTCAGCTCCACTCCACAGGCAAAACTCAACTGGGGTCTGAGCCTTGGTCCTCTAACTCCATCTTCAGC

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.52238.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis