Browse Element(s) Details


OsAffx.9996.1.S1_x_at

Description gb:NM_188054.1
DB_XREF= gi:34903191
TID=OsAffx.9996.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) unnamed protein product (Gene), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os06g277203/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g503801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g200001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g471001/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os06g27690NANA6+15678536..15680957retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g27700OsAffx.15648.1.S1_at1/116+15682978..15686666Zinc knuckle family protein
LOC_Os06g27700OsAffx.6300.1.S1_at1/116+15682978..15686666Zinc knuckle family protein
LOC_Os06g27710NANA6+15687316..15688566hypothetical protein
LOC_Os06g27720OsAffx.9996.1.S1_x_at3/116+15694778..15701915retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g27720OsAffx.23450.1.S1_at1/116+15694778..15701915retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g27720OsAffx.21269.1.S1_x_at1/116+15694778..15701915retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g27720OsAffx.31761.1.S1_at1/116+15694778..15701915retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g27730NANA6+15703878..15705912retrotransposon protein, putative, unclassified
LOC_Os06g27740OsAffx.4378.1.S1_x_at2/116+15708167..15714161retrotransposon protein, putative, unclassified
LOC_Os06g27740Os.20851.1.A1_x_at2/116+15708167..15714161retrotransposon protein, putative, unclassified
LOC_Os06g27740OsAffx.25778.2.S1_at1/116+15708167..15714161retrotransposon protein, putative, unclassified
LOC_Os06g27740OsAffx.15695.1.S1_x_at1/116+15708167..15714161retrotransposon protein, putative, unclassified
LOC_Os06g27750NANA6+15716182..15717302retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g27760Os.36369.1.S1_at11/116+15717526..15720269Peptide methionine sulfoxide reductase msrB, putative, expressed
LOC_Os06g27760Os.57412.1.S1_at10/116+15717526..15720269Peptide methionine sulfoxide reductase msrB, putative, expressed
LOC_Os06g27770Os.15988.1.S1_at11/116+15723708..15726432Isoflavone reductase homolog, putative, expressed

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.9996.1.S1_x_at--697--1071Chr01:9352036..9352060 (25 bp)
AGGGAGCAGTGCACCACGTGGCGCT
NONE
OsAffx.9996.1.S1_x_at--1018--8932Chr08:13167684..13167707 (23 bp)
TGACGTGGCGCGACGTGGCACACAC
NONE
OsAffx.9996.1.S1_x_at--213--33510Chr07:16553434..16553508 (25 bp)
CACGTGGCAGCCACATCGGACGGCG
NONE
OsAffx.9996.1.S1_x_at--1000--4091Chr01:9351899..9351923 (25 bp)
CGACTGGCGCGCACGGGCAGCTCAA
NONE
OsAffx.9996.1.S1_x_at--682--1671Chr01:9351875..9351899 (25 bp)
AGCCGGCCCGGCAGCAATGGCGTAC
NONE
OsAffx.9996.1.S1_x_at--745--3412Chr04:6416431..6416450 (20 bp)
CAGCAATGGCGTACGGCGGCGCTAC
NONE
OsAffx.9996.1.S1_x_at--553--4634Chr05:25990443..25990683 (25 bp)
GCGATGCGACGACTAGGCGGCGGCG
NONE
OsAffx.9996.1.S1_x_at--276--7754Chr04:11126157..11126181 (25 bp)
GGTGTCCTCACCGAAGAGGTCCGAC
LOC_Os04g20000
OsAffx.9996.1.S1_x_at--788--9673Chr09:2451549..2451573 (25 bp)
TCACCGAAGAGGTCCGACCGGCGTG
NONE
OsAffx.9996.1.S1_x_at--244--9297Chr05:25990521..25990545 (25 bp)
TCCGACCGGCGTGGAGGGAGACGAC
NONE
OsAffx.9996.1.S1_x_at--948--7351Chr01:9351677..9351701 (25 bp)
GTGAACGGCGGCGAGACTCGACAGA
NONE
Target Sequence 
AGGGAGCAGTGCACCACGTGGCGCTGACGTGGCGCGACGTGGCACACACGTGGCAGCCACATCGGACGGCGGCGGGGAGC
GCGCGACTGGCGCGCACGGGCAGCTCAAGCCGGCCCGGCAGCAATGGCGTACGGCGGCGCTACCGCGGGGCGGCGGCGGC
AGACGGCGGCGAGTGGCGGCGGCGCGACGAGCGGCGGCGGCGCGATGCGACGACTAGGCGGCGGCGCTACCGGAGGAAAA
GAGAGGGGGAAGAAGGAGGGGGTGTCCTCACCGAAGAGGTCCGACCGGCGTGGAGGGAGACGACGGTGAACGGCGGCGAG
ACTCGACAGA

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.9996.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis