Browse Element(s) Details

Os.2235.3.S1_x_at

Description

gb:NM_197367.1
DB_XREF= gi:37536093
TID=Os.2235.3
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.2235 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) putative reverse transcriptase (OSJNBa0076F20.17), mRNA.
PROD=putative reverse transcriptase
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os06g50190	11/11	retrotransposon protein, putative, unclassified
LOC_Os10g11090	11/11	retrotransposon protein, putative, unclassified
LOC_Os10g37370	11/11	retrotransposon protein, putative, unclassified
LOC_Os07g32690	10/11	retrotransposon protein, putative, unclassified
LOC_Os12g06010	9/11	retrotransposon protein, putative, unclassified, expressed

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os06g50130	Os.17198.1.S1_at	11/11	6	+	30361752..30362812	expressed protein
LOC_Os06g50140	Os.50481.1.S1_at	11/11	6	+	30363072..30365664	Glycosyl hydrolase family 9 protein, expressed
LOC_Os06g50154	Os.10917.1.S1_at	11/11	6	+	30366404..30373549	Translocon-associated protein alpha subunit precursor, putative, expressed
LOC_Os06g50154	Os.22946.1.S2_at	11/11	6	+	30366404..30373549	Translocon-associated protein alpha subunit precursor, putative, expressed
LOC_Os06g50154	Os.22946.1.S1_at	10/11	6	+	30366404..30373549	Translocon-associated protein alpha subunit precursor, putative, expressed
LOC_Os06g50170	Os.16975.1.S1_at	11/11	6	+	30375356..30380323	brain and reproductive organ-expressed, putative, expressed
LOC_Os06g50180	Os.50494.1.A1_at	10/11	6	+	30382143..30385892	Non-imprinted in Prader-Willi/Angelman syndrome region protein 2homolog, putative, expressed
LOC_Os06g50190	Os.2235.3.S1_x_at	11/11	6	+	30386919..30393175	retrotransposon protein, putative, unclassified
LOC_Os06g50190	Os.52007.1.S1_at	1/11	6	+	30386919..30393175	retrotransposon protein, putative, unclassified
LOC_Os06g50200	NA	NA	6	+	30396269..30399164	retrotransposon protein, putative, unclassified, expressed
LOC_Os06g50210	OsAffx.5157.1.S1_at	11/11	6	+	30400328..30402076	hypothetical protein
LOC_Os06g50220	Os.15039.1.S1_at	11/11	6	+	30407670..30413526	expressed protein
LOC_Os06g50230	Os.4999.1.S1_at	11/11	6	+	30416663..30417847	expressed protein

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Gene Ontology Classification

GO id	Type	Name
NONE	NONE	NONE

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.2235.3.S1_x_at--752--269	4	Chr10:19686367..19686391 (25 bp)	AAGCTCCTCAGGCTGACCTGGTAAA	LOC_Os10g37370
Os.2235.3.S1_x_at--887--907	5	Chr12:2773603..2773627 (25 bp)	TGCTTAACAATCACCAACCATGCTG	LOC_Os12g06010
Os.2235.3.S1_x_at--1078--623	5	Chr12:2773665..2773689 (25 bp)	GATGGATCCTTTGACGCTAGCTCCG	LOC_Os12g06010
Os.2235.3.S1_x_at--558--651	5	Chr12:2773731..2773755 (25 bp)	GATATCATCTTCACTTCTTGCAAAC	LOC_Os12g06010
Os.2235.3.S1_x_at--953--147	4	Chr12:2773781..2773805 (25 bp)	AGAATCAGAGCTGCGTGCCTGTGTT	LOC_Os12g06010
Os.2235.3.S1_x_at--983--531	5	Chr12:2773806..2773830 (25 bp)	GAAGGGCTTAAGCTGGCGATCCATT	LOC_Os12g06010
Os.2235.3.S1_x_at--1022--1	5	Chr12:2773828..2773852 (25 bp)	ATTGGACTTTGCTTCCGATTCAGGT	LOC_Os12g06010
Os.2235.3.S1_x_at--492--249	5	Chr12:2773856..2773880 (25 bp)	AACAGATTGTGCCTCAGTGGTCCAG	LOC_Os12g06010
Os.2235.3.S1_x_at--681--435	4	Chr10:19686719..19686743 (25 bp)	CCAGCTTCTGCAGGGTACCGGTAGA	LOC_Os10g37370
Os.2235.3.S1_x_at--533--605	5	Chr12:2773900..2773924 (25 bp)	GAGATTTTTCTGTTCTAGCCAACAT	LOC_Os12g06010
Os.2235.3.S1_x_at--712--697	5	Chr12:2773987..2774011 (25 bp)	GTAGCCAGAATTGCATTAGCCATCA	LOC_Os12g06010

Target Sequence

AAGCTCCTCAGGCTGACCTGGTAAAAGGAAAGCATGTGGTGAGGACTGTACCTCTGAAAGGAGGGCCTAAATATCGAGTG
CTTAACAATCACCAACCATGCTGGGAGAGACCAAAAGATGGCTGGATGAAATTAAATGTGGATGGATCCTTTGACGCTAG
CTCCGGTAAGGGGGGTCTTGGAATGATCCTCAGGAATAGCGCTGGTGATATCATCTTCACTTCTTGCAAACCCCTTGAAA
GATGCAACAACCCGCTAGAATCAGAGCTGCGTGCCTGTGTTGAAGGGCTTAAGCTGGCGATCCATTGGACTTTGCTTCCG
ATTCAGGTGGAAACAGATTGTGCCTCAGTGGTCCAGCTTCTGCAGGGTACCGGTAGAGATTTTTCTGTTCTAGCCAACAT
CATTCATGAAGCGAGGCATCTGCTGGTGGGTGAAAGGGTGATTTCTATTAAGAAAATATGTCGTAGCCAGAATTGCATTA
GCCATCA

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:

Putative homologies in rice

Putative homologies in arabidopsis