Browse Element(s) Details

OsAffx.20784.1.S1_at

Description

tigr:9638.m00212
TID=OsAffx.20784.1
CNT=2
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=AC116601 Putative retroelement
REP_ORG=O. sativa

Associated TIGR Gene Locus

TIGR Locus	Matching Probes	Description
LOC_Os10g03060	11/11	hypothetical protein

Gene Context (flanking 25kb)

TIGR Locus	Matching Probeset	Matching Probes	Chr	Strand	Coordinates	Description
LOC_Os10g03010	Os.38751.1.A1_at	6/11	10	+	1234850..1236279	retrotransposon protein, putative, unclassified
LOC_Os10g03010	OsAffx.28492.1.S1_at	1/11	10	+	1234850..1236279	retrotransposon protein, putative, unclassified
LOC_Os10g03010	OsAffx.10020.1.S1_x_at	1/11	10	+	1234850..1236279	retrotransposon protein, putative, unclassified
LOC_Os10g03020	OsAffx.31869.1.S1_at	10/11	10	+	1237711..1238826	retrotransposon protein, putative, unclassified
LOC_Os10g03020	OsAffx.31869.5.S1_x_at	7/11	10	+	1237711..1238826	retrotransposon protein, putative, unclassified
LOC_Os10g03020	OsAffx.31869.3.S1_s_at	3/11	10	+	1237711..1238826	retrotransposon protein, putative, unclassified
LOC_Os10g03020	OsAffx.31869.4.S1_x_at	1/11	10	+	1237711..1238826	retrotransposon protein, putative, unclassified
LOC_Os10g03020	OsAffx.31869.4.S1_at	1/11	10	+	1237711..1238826	retrotransposon protein, putative, unclassified
LOC_Os10g03020	OsAffx.31869.2.S1_at	1/11	10	+	1237711..1238826	retrotransposon protein, putative, unclassified
LOC_Os10g03030	Os.38751.1.A1_at	5/11	10	+	1240040..1241469	retrotransposon protein, putative, unclassified
LOC_Os10g03030	OsAffx.10020.1.S1_x_at	1/11	10	+	1240040..1241469	retrotransposon protein, putative, unclassified
LOC_Os10g03030	OsAffx.28492.1.S1_at	1/11	10	+	1240040..1241469	retrotransposon protein, putative, unclassified
LOC_Os10g03040	Os.20851.1.A1_x_at	2/11	10	+	1242412..1247731	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03040	OsAffx.5035.1.S1_at	1/11	10	+	1242412..1247731	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03040	Os.55580.1.S1_at	1/11	10	+	1242412..1247731	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03040	Os.6502.1.A1_at	1/11	10	+	1242412..1247731	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03040	Os.6502.1.A1_x_at	1/11	10	+	1242412..1247731	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03050	OsAffx.18098.1.S1_at	11/11	10	+	1249433..1250617	Leucine Rich Repeat family protein, expressed
LOC_Os10g03060	OsAffx.20784.1.S1_at	11/11	10	+	1258752..1260367	hypothetical protein
LOC_Os10g03070	OsAffx.32166.1218.S1_x_at	3/11	10	+	1262999..1274485	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03070	OsAffx.1349.1.S1_x_at	1/11	10	+	1262999..1274485	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03070	OsAffx.30280.1.S1_x_at	1/11	10	+	1262999..1274485	retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g03080	OsAffx.20783.1.S1_at	11/11	10	+	1276774..1278273	hypothetical protein
LOC_Os10g03090	NA	NA	10	+	1285137..1285511	expressed protein

Select all/Clear all

Gene Ontology Classification

GO id	Type	Name
NONE	NONE	NONE

Probe Info

Probe Name	Hit(s)	Location	Sequence	TIGR Locus
OsAffx.20784.1.S1_at--745--695	1	Chr10:1259667..1259691 (25 bp)	GTAGCTCAGCCCAAAGGAATTGTGC	LOC_Os10g03060
OsAffx.20784.1.S1_at--1110--519	1	Chr10:1259683..1259707 (25 bp)	GAATTGTGCCACAAGAGTACTGCGA	LOC_Os10g03060
OsAffx.20784.1.S1_at--682--101	1	Chr10:1259712..1259736 (25 bp)	AGGTTGCTACCATTCCCACAAAGGT	LOC_Os10g03060
OsAffx.20784.1.S1_at--748--1061	1	Chr10:1259772..1259796 (25 bp)	TTCGTTGAGGTGATCCAGAATATCC	LOC_Os10g03060
OsAffx.20784.1.S1_at--771--147	1	Chr10:1259788..1259812 (25 bp)	AGAATATCCACATTCACGTGCCACT	LOC_Os10g03060
OsAffx.20784.1.S1_at--963--729	1	Chr10:1259829..1259853 (25 bp)	GTGCCCACTTATGCATTATATCTTA	LOC_Os10g03060
OsAffx.20784.1.S1_at--803--531	1	Chr10:1259892..1260017 (25 bp)	GAAGTGAAATTCGACCAGGCCCTCT	LOC_Os10g03060
OsAffx.20784.1.S1_at--593--419	1	Chr10:1260012..1260036 (25 bp)	CCCTCTACGACCTTGAAGCTAGTGT	LOC_Os10g03060
OsAffx.20784.1.S1_at--637--269	1	Chr10:1260027..1260051 (25 bp)	AAGCTAGTGTCAGCATTATGCCCAA	LOC_Os10g03060
OsAffx.20784.1.S1_at--210--589	1	Chr10:1260107..1260131 (25 bp)	GAGCTGGCCAATTCATCGGTCCGTT	LOC_Os10g03060
OsAffx.20784.1.S1_at--953--1013	1	Chr10:1260295..1260319 (25 bp)	TATCCATTTCCGTATCAACAGAAGG	LOC_Os10g03060

Target Sequence

GTAGCTCAGCCCAAAGGAATTGTGCCACAAGAGTACTGCGACACGAGGTTGCTACCATTCCCACAAAGGTACAGGAAGCC
GTCGGTGGACGAGCAGTTCGCTCGTTTCGTTGAGGTGATCCAGAATATCCACATTCACGTGCCACTGCTGGATGCTATGC
AAGTGCCCACTTATGCATTATATCTTAAGGATATCCTCAATAACAAGAGGCCACTACCAACAACCGAAGTGAAATTCGAC
CAGGCCCTCTACGACCTTGAAGCTAGTGTCAGCATTATGCCCAAAGAAGTCTTCGACAAGCTTAACTTCACGGTGTTGGC
TCCAACACCGATGCGCCGGGAGCTGGCCAATTCATCGGTCCGTTACTCAGCTGGGATAGCGGAAGATGTGCCGGTCAAAA
TACGGGATTTCTTCATCCCAGTTGATTTTGTGGTGCTGGAGATGGAGTCAGACAAGGAGACGCCACTCATCCTGGGCTGT
CTGTTCCATAGCACCGCAGGCGCCAACATTGATGTGGGAACGGGAAGTATCCATTTCCGTATCAACAGAAGG

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