Browse Element(s) Details

Os.46055.2.S1_x_at

Description

gb:NM_194740.1
DB_XREF= gi:37530839
TID=Os.46055.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.46055 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) putative retrotransposable elements TNP2 (OSJNBb0004A06.12), mRNA.
PROD=putative retrotransposable elements TNP2
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os10g04290	11/11	transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os08g33760	7/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g29230	7/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g36010	7/11	transposon protein, putative, unclassified
LOC_Os09g12810	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g12230	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g42230	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g23670	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g26090	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g49090	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g22880	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g20130	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os05g50040	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g19820	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os03g62450	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g08150	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g27590	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g11540	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g26690	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g12840	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g40250	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g05610	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g41460	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g32830	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os03g37610	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g30530	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g23910	6/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g14280	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g16660	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g11930	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g30460	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os02g29930	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g36280	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g35240	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g14294	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g28810	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g03040	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g39760	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g42010	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g37850	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g59260	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g11230	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os05g23750	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g08810	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os08g44970	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g12730	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g01820	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g13620	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g49580	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g37420	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g24310	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g16680	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g12450	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g16900	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os05g25010	5/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g23630	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os02g34020	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os03g29020	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g33050	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g24640	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g24940	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os05g48550	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os05g38900	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g63760	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g25330	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g23810	4/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g09310	3/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os03g26610	3/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g13860	3/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os07g45900	3/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os12g13180	3/11	transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os09g04240	3/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g16010	3/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g32740	3/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g23920	2/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os04g06270	2/11	hypothetical protein
LOC_Os04g06260	2/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g43110	2/11	transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g47050	2/11	transposon protein, putative, CACTA, En/Spm sub-class

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os10g04270	Os.10358.1.A1_at	11/11	10	+	1982985..1983982	Jacalin-like lectin domain containing protein, expressed
LOC_Os10g04280	Os.23219.2.S1_x_at	1/11	10	+	1995147..1996028	hypothetical protein
LOC_Os10g04290	Os.46055.1.S1_at	11/11	10	+	2003103..2016533	transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04290	Os.46055.2.S1_x_at	11/11	10	+	2003103..2016533	transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04290	Os.10827.1.S1_x_at	9/11	10	+	2003103..2016533	transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04290	OsAffx.18122.1.S1_x_at	1/11	10	+	2003103..2016533	transposon protein, putative, CACTA, En/Spm sub-class, expressed
LOC_Os10g04316	OsAffx.25936.3.S1_at	11/11	10	+	2019282..2025668	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316	OsAffx.25936.7.S1_s_at	8/11	10	+	2019282..2025668	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316	OsAffx.25936.5.S1_x_at	8/11	10	+	2019282..2025668	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316	OsAffx.25936.1.S1_s_at	7/11	10	+	2019282..2025668	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316	OsAffx.25936.2.S1_x_at	3/11	10	+	2019282..2025668	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04316	OsAffx.25936.1.S1_at	1/11	10	+	2019282..2025668	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g04342	Os.51966.1.S1_at	11/11	10	+	2028190..2041707	disease resistance protein RPM1 homolog, putative, expressed
LOC_Os10g04342	OsAffx.30274.1.S1_x_at	11/11	10	+	2028190..2041707	disease resistance protein RPM1 homolog, putative, expressed
LOC_Os10g04342	OsAffx.30274.1.S1_at	11/11	10	+	2028190..2041707	disease resistance protein RPM1 homolog, putative, expressed
LOC_Os10g04342	Os.11925.1.S1_at	8/11	10	+	2028190..2041707	disease resistance protein RPM1 homolog, putative, expressed
LOC_Os10g04342	Os.36453.1.S1_at	1/11	10	+	2028190..2041707	disease resistance protein RPM1 homolog, putative, expressed

Select all/Clear all

Gene Ontology Classification

GO id	Type	Name
NONE	NONE	NONE

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
Os.46055.2.S1_x_at--974--473	2	Chr10:2015834..2015858 (25 bp)	GCTGTACATTGACGAACACCTTGCA	LOC_Os10g04290
Os.46055.2.S1_x_at--883--563	9	Chr12:14608420..14608444 (25 bp)	GACAGGAGAACCCAGGCCGATCAGA	LOC_Os12g25330
Os.46055.2.S1_x_at--25--771	67	Chr12:17310288..17310312 (25 bp)	GGGTCCTGAATGGAGTGCCACCACC	LOC_Os12g29230
Os.46055.2.S1_x_at--593--297	47	Chr12:14608593..14608617 (25 bp)	AATGGATACACCTTTCACACGGTAA	LOC_Os12g25330
Os.46055.2.S1_x_at--697--109	56	Chr12:17310385..17310409 (25 bp)	AGTGGGTTACGCATCGAGGCTGCTA	LOC_Os12g29230
Os.46055.2.S1_x_at--750--575	1	Chr10:2016127..2016151 (25 bp)	GACGTCGTGTTCAATACTATGGTAG	LOC_Os10g04290
Os.46055.2.S1_x_at--1091--3	61	Chr12:17310498..17310521 (24 bp)	ATTGTCGATGGGTCGATCTTCGCAA	LOC_Os12g29230
Os.46055.2.S1_x_at--204--1033	70	Chr12:17310543..17310567 (25 bp)	TTTCACCACTGTCAACTTGGCTAAC	LOC_Os12g29230
Os.46055.2.S1_x_at--567--799	2	Chr12:17310579..17310603 (25 bp)	GGATGAACCATTCGTTCTCGCCAAA	LOC_Os12g29230
Os.46055.2.S1_x_at--668--111	65	Chr12:17310615..17310639 (25 bp)	AGTGTTCTACATAGTTGACCCGTGT	LOC_Os12g29230
Os.46055.2.S1_x_at--602--341	18	Chr12:17310721..17310745 (25 bp)	CAGCACGTCCATGGCATAGGTCAAG	LOC_Os12g29230

Target Sequence

GCTGTACATTGACGAACACCTTGCAGTTCTCCGACAGGAGAACCCAGGCCGATCAGAGAGTTGGGGTCCTGAATGGAGTG
CCACCACCTGGCAAGGATATGACATAAATGGATACACCTTTCACACGGTAAAGCAAGACAGCAAATGCACAGTGCAGAAC
AGTGGGTTACGCATCGAGGCTGCTAGTGACGGTGGACGTCGTGTTCAATACTATGGTAGAGTTGAGCAAATATTGGAGCT
AGATTACTTGAAGTTCAAAGTCCCGTTGTTTCATTGTCGATGGGTCGATCTTCGCAATGTAAAAGTTGACAATGAAGGTT
TCACCACTGTCAACTTGGCTAACAACGCGTACAAGGATGAACCATTCGTTCTCGCCAAACAAGTTGTTCAAGTGTTCTAC
ATAGTTGACCCGTGTAACAAGAAACTACATGTTGTTCGTGAAGGGAAAAGGAGAATTGTTGGATTGGACAATATTGCAGA
CGAGGATGATTACAACCAGCACGTCCATGGCATAGGTCAAG

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