Browse Element(s) Details


OsAffx.31892.2.S1_x_at

Description gb:NM_195327.1
DB_XREF= gi:37532013
TID=OsAffx.31892.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gag-pol polyprotein (OSJNBb0005F01.20), mRNA.
PROD=putative gag-pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1179411/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g251802/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g224902/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g252102/11retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os11g321802/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g248602/11retrotransposon, putative, centromere-specific
LOC_Os04g277302/11transposon protein, putative, Mutator sub-class
LOC_Os04g145802/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g230802/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g084201/11retrotransposon protein, putative, unclassified
LOC_Os01g309801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g357201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g222801/11retrotransposon, putative, centromere-specific
LOC_Os07g208801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os02g297301/11retrotransposon protein, putative, unclassified
LOC_Os01g310201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g229601/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g143301/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g290001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g299401/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g099901/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g182001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g225801/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os09g046601/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g186901/11retrotransposon protein, putative, Ty3-gypsy subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g11740NANA10+6257441..6259614hypothetical protein
LOC_Os10g11750Os.46860.2.S1_at11/1110+6262227..6275459Protease inhibitor/seed storage/LTP family protein, expressed
LOC_Os10g11750Os.46860.2.S1_x_at11/1110+6262227..6275459Protease inhibitor/seed storage/LTP family protein, expressed
LOC_Os10g11750Os.46860.1.S1_at10/1110+6262227..6275459Protease inhibitor/seed storage/LTP family protein, expressed
LOC_Os10g11770OsAffx.30393.1.S1_at2/1110+6277934..6278308hypothetical protein
LOC_Os10g11780Os.49923.1.S1_at1/1110+6279355..6282068hypothetical protein
LOC_Os10g11794OsAffx.31892.2.S1_x_at11/1110+6284476..6296025retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11794OsAffx.31892.2.S1_at11/1110+6284476..6296025retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11794OsAffx.7216.1.S1_at2/1110+6284476..6296025retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11794OsAffx.24431.1.S1_at2/1110+6284476..6296025retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11794OsAffx.16438.1.S1_at1/1110+6284476..6296025retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11794OsAffx.31892.5.S1_x_at1/1110+6284476..6296025retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11810Os.7543.1.S1_at11/1110+6305945..6309391mannitol dehydrogenase, putative, expressed
LOC_Os10g11820OsAffx.30394.1.S1_at11/1110+6317266..6320164expressed protein

Select all/Clear all

Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.31892.2.S1_x_at--889--6557Chr12:6434359..6434380 (22 bp)
GATTCCGCCCAAATCGACTGTTTAT
NONE
OsAffx.31892.2.S1_x_at--369--45543Chr11:15691383..15691407 (25 bp)
GCCCAAATCGACTGTTTATCAATAC
NONE
OsAffx.31892.2.S1_x_at--973--9953Chr10:6295113..6295137 (25 bp)
TACCTATCGGAAGATTGGGATCTAA
LOC_Os10g11794
OsAffx.31892.2.S1_x_at--1068--6411Chr10:6295131..6295155 (25 bp)
GATCTAACATCCCTCATCACTTTGG
LOC_Os10g11794
OsAffx.31892.2.S1_x_at--232--3731Chr10:6295134..6295158 (25 bp)
CTAACATCCCTCATCACTTTGGGTA
LOC_Os10g11794
OsAffx.31892.2.S1_x_at--276--8732Chr10:6295210..6295234 (25 bp)
TGTCTCATGTGGAGTTTGCATACAA
LOC_Os10g11794
OsAffx.31892.2.S1_x_at--721--68521Chr11:12513795..12513819 (25 bp)
GTTTGCATACAATCGGGCAACACAT
LOC_Os11g22580
OsAffx.31892.2.S1_x_at--407--817Chr10:6295282..6295306 (25 bp)
ATGGTTTCAACCCTCGTGCTCCAAT
LOC_Os10g11794
OsAffx.31892.2.S1_x_at--563--5671Chr10:6295949..6295973 (25 bp)
GACATCTAAGTCAAGGTGGAGACCC
LOC_Os10g11794
OsAffx.31892.2.S1_x_at--769--433Chr10:6295952..6295976 (25 bp)
ATCTAAGTCAAGGTGGAGACCCAAA
LOC_Os10g11794
OsAffx.31892.2.S1_x_at--261--1792Chr10:6295970..6295994 (25 bp)
ACCCAAACCAAGTCGATGTCGGGTG
LOC_Os10g11794
Target Sequence 
GATTCCGCCCAAATCGACTGTTTATCAATACCTATCGGAAGATTGGGATCTAACATCCCTCATCACTTTGGGTACCATGT
TGAGGGCTATTTTGAAGAAAAAATTAAAGATGTGGGAAGAATGTTTGTCTCATGTGGAGTTTGCATACAATCGGGCAACA
CATTCTACTACCAAGGTAAGTCCTTTTCAGGTAGTGTATGGTTTCAACCCTCGTGCTCCAATTGATATTTTGCCTTTACC
TACTAGTGAGAGGGTTCATAATGATGTTAAGGCACACGCTGAATTTATTTTGAAAATGCATGAGTCAACTAAGCTCAACA
TTGAAAAGATGACTGAAAAGTATAGAATTGCTGGTAGTAAAGGAACAAATGGAGGGGATAAGGAGACACTTGGAGAAGGA
CTTAGAGCCATAGAGGATCATCGAGGACATCTAAGTCAAGGTGGAGACCCAAACCAAGTCGATGTCGGGTG

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.31892.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis