Browse Element(s) Details


OsAffx.21171.3.S1_x_at

Description gb:NM_196320.1
DB_XREF= gi:37533999
TID=OsAffx.21171.3
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gag-pol precursor (OSJNBa0011L09.15), mRNA.
PROD=putative gag-pol precursor
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g255175/11retrotransposon protein, putative, unclassified
LOC_Os05g396204/11retrotransposon protein, putative, unclassified
LOC_Os01g340404/11retrotransposon protein, putative, unclassified
LOC_Os07g426804/11transposon protein, putative, unclassified
LOC_Os08g294904/11retrotransposon protein, putative, unclassified
LOC_Os09g152704/11retrotransposon protein, putative, unclassified
LOC_Os05g036603/11retrotransposon protein, putative, unclassified
LOC_Os09g081803/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g614003/11retrotransposon protein, putative, unclassified
LOC_Os12g395903/11retrotransposon protein, putative, unclassified
LOC_Os05g311302/11retrotransposon protein, putative, unclassified
LOC_Os12g203002/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g398202/11retrotransposon protein, putative, unclassified
LOC_Os08g246902/11retrotransposon protein, putative, unclassified
LOC_Os01g136202/11retrotransposon protein, putative, unclassified
LOC_Os01g478602/11retrotransposon protein, putative, unclassified
LOC_Os04g546602/11retrotransposon protein, putative, unclassified
LOC_Os05g377502/11retrotransposon protein, putative, unclassified
LOC_Os01g215301/11retrotransposon protein, putative, unclassified
LOC_Os03g368801/11retrotransposon protein, putative, unclassified
LOC_Os01g542601/11retrotransposon protein, putative, unclassified
LOC_Os02g142201/11retrotransposon protein, putative, unclassified
LOC_Os08g227901/11retrotransposon protein, putative, unclassified
LOC_Os10g102141/11transposon protein, putative, unclassified
LOC_Os06g111101/11transposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g25487Os.46451.1.S2_at11/1110+12839808..12852128Leucine Rich Repeat family protein, expressed
LOC_Os10g25487Os.46451.3.S1_x_at11/1110+12839808..12852128Leucine Rich Repeat family protein, expressed
LOC_Os10g25487Os.46451.2.S1_x_at11/1110+12839808..12852128Leucine Rich Repeat family protein, expressed
LOC_Os10g25487Os.46451.1.S1_at11/1110+12839808..12852128Leucine Rich Repeat family protein, expressed
LOC_Os10g25487Os.46451.3.S1_at11/1110+12839808..12852128Leucine Rich Repeat family protein, expressed
LOC_Os10g25487Os.45957.3.S1_x_at4/1110+12839808..12852128Leucine Rich Repeat family protein, expressed
LOC_Os10g25487Os.49445.1.S1_at2/1110+12839808..12852128Leucine Rich Repeat family protein, expressed
LOC_Os10g25487Os.45957.4.S1_x_at1/1110+12839808..12852128Leucine Rich Repeat family protein, expressed
LOC_Os10g25502OsAffx.21171.5.S1_x_at1/1110+12861331..12863178retrotransposon protein, putative, unclassified
LOC_Os10g25517OsAffx.21171.3.S1_x_at5/1110+12864973..12865386retrotransposon protein, putative, unclassified
LOC_Os10g25530NANA10+12868472..12875130retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g25540OsAffx.20380.2.S1_at11/1110+12879394..12881298retrotransposon protein, putative, unclassified
LOC_Os10g25540OsAffx.20380.2.S1_x_at11/1110+12879394..12881298retrotransposon protein, putative, unclassified
LOC_Os10g25544NANA10+12883438..12884489hypothetical protein
LOC_Os10g25550Os.46687.1.S1_at11/1110+12888521..12894729serine/threonine-protein kinase NAK, putative, expressed
LOC_Os10g25550Os.46687.1.S1_x_at11/1110+12888521..12894729serine/threonine-protein kinase NAK, putative, expressed

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.21171.3.S1_x_at--46--4556Chr10:12864495..12864519 (25 bp)
GCCCGTCCACTTCGAGATGCGAAAA
NONE
OsAffx.21171.3.S1_x_at--878--4291NONE
GCGAAAACCCGGTGACTCCCAGCTG
NONE
OsAffx.21171.3.S1_x_at--135--93111Chr10:12865054..12865078 (25 bp)
TCCCAGCTGGTCGTAAATCAAGTAT
LOC_Os10g25517
OsAffx.21171.3.S1_x_at--801--2336Chr10:12865081..12865105 (25 bp)
AAAGAGTACCAGTGCACCGACCCAC
LOC_Os10g25517
OsAffx.21171.3.S1_x_at--480--3575Chr10:12865115..12865139 (25 bp)
CATATGTCCGCGAAGTGCGGCGCAT
LOC_Os10g25517
OsAffx.21171.3.S1_x_at--1132--8519Chr10:12865139..12865163 (25 bp)
TGGAACGCCACTTCGACGGACTCAA
LOC_Os10g25517
OsAffx.21171.3.S1_x_at--817--2133Chr10:12865192..12865216 (25 bp)
ACAGTCGCTGACGAGTTGTCGCGTG
LOC_Os10g25517
OsAffx.21171.3.S1_x_at--174--4191Chr10:12865792..12865811 (20 bp)
CCCTCACATCCTTGGATCATTCAAG
NONE
OsAffx.21171.3.S1_x_at--444--8710Chr10:12865820..12865844 (25 bp)
AGGCGGGTATCAGCACTTGTACGTC
NONE
OsAffx.21171.3.S1_x_at--890--5239Chr10:12865872..12865896 (25 bp)
GAAGCTTACCCGGTCGTCAAAATCG
NONE
OsAffx.21171.3.S1_x_at--836--75910Chr10:12865925..12865949 (25 bp)
GGGCATCACGTCTCGATTCGGAGTG
NONE
Target Sequence 
GCCCGTCCACTTCGAGATGCGAAAACCCGGTGACTCCCAGCTGGTCGTAAATCAAGTATCCAAAGAGTACCAGTGCACCG
ACCCACAAATGGATGCATATGTCCGCGAAGTGCGGCGCATGGAACGCCACTTCGACGGACTCAAGCTCCGGCACGTGCCC
CAACGCGACAACACAGTCGCTGACGAGTTGTCGCGTGTTGCGTCGGCACGAGCCCCACTCCCCCTGGGGACTTTCGAGGA
AAGACTCGCGCAACCATCGGCGCGACCGAACCCCTTGAGGGACCCCAACGACACGCCTTCCGTCCCGACCCCCGGCGACC
CGCACCCCTCAGGGCCCGAGGGGGTCGACCCCGACCCCCCTCACATCCTTGGATCATTCAAGGCGGCTCGAGGCGGGTAT
CAGCACTTGTACGTCGCCATCGACAAGTTCACCAAGTGGCCCGAAGCTTACCCGGTCGTCAAAATCGACAAGCATTCTGC
CCTCAAGTTCATCAGGGGCATCACGTCTCGATTCGGAGTG

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 OsAffx.21171.3.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis