Browse Element(s) Details


OsAffx.22708.4.S1_x_at

Description gb:NM_195792.1
DB_XREF= gi:37532943
TID=OsAffx.22708.4
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative retroelement (OSJNBa0027A14.26), mRNA.
PROD=putative retroelement
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1878011/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g121908/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os02g072707/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g199307/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g369807/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os05g092506/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g165704/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g18740Os.26886.1.S1_x_at3/1110+9193232..9201170transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g18740Os.26886.3.S1_x_at1/1110+9193232..9201170transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g18750OsAffx.6693.1.S1_at11/1110+9203138..9204482hypothetical protein
LOC_Os10g18750OsAffx.10222.1.S1_x_at2/1110+9203138..9204482hypothetical protein
LOC_Os10g18750OsAffx.21755.1.S1_x_at1/1110+9203138..9204482hypothetical protein
LOC_Os10g18750Os.51841.1.S1_x_at1/1110+9203138..9204482hypothetical protein
LOC_Os10g18760Os.8510.1.S1_at11/1110+9210026..9211586jasmonate-induced protein, putative, expressed
LOC_Os10g18770OsAffx.22708.2.S1_at11/1110+9212522..9215278retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g18770OsAffx.22708.2.S1_x_at11/1110+9212522..9215278retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g18770OsAffx.22708.5.S1_x_at6/1110+9212522..9215278retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g18770OsAffx.22708.1.S1_x_at4/1110+9212522..9215278retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g18780OsAffx.22708.4.S1_x_at11/1110+9216448..9217545retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g18780OsAffx.22708.3.S1_x_at7/1110+9216448..9217545retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g18790OsAffx.25936.2.S1_x_at11/1110+9230516..9233250transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g18790OsAffx.25936.1.S1_s_at9/1110+9230516..9233250transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g18790OsAffx.25936.7.S1_s_at9/1110+9230516..9233250transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g18790OsAffx.25936.5.S1_x_at2/1110+9230516..9233250transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g18800OsAffx.18294.1.S1_at10/1110+9236095..9237547hypothetical protein
LOC_Os10g18800OsAffx.23696.1.S1_x_at1/1110+9236095..9237547hypothetical protein
LOC_Os10g18800OsAffx.988.1.S1_at1/1110+9236095..9237547hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.22708.4.S1_x_at--730--2833Chr02:3734440..3734464 (25 bp)
AAGTATTCTGAACTGGTCTCCGTGC
LOC_Os02g07270
OsAffx.22708.4.S1_x_at--977--7151Chr10:9216984..9217008 (25 bp)
GTCTCCGTGCTCTTGGAAGCGCAAG
LOC_Os10g18780
OsAffx.22708.4.S1_x_at--460--8816Chr05:5149301..5149325 (25 bp)
TGTTGAAAATCATACGTCTCGCCCC
LOC_Os05g09250
OsAffx.22708.4.S1_x_at--977--8194Chr10:9216915..9216939 (25 bp)
GGAAGTTCAGCAGCACCCAAAGCAA
LOC_Os10g18780
OsAffx.22708.4.S1_x_at--665--5117Chr05:5149350..5149374 (25 bp)
GCAAATGCTAGCTCCTTTAAGAAGG
LOC_Os05g09250
OsAffx.22708.4.S1_x_at--18--2757Chr05:5149479..5149503 (25 bp)
AAGAAGGGCTCTACTAGTGGTGAAT
LOC_Os05g09250
OsAffx.22708.4.S1_x_at--553--411Chr10:9216728..9216752 (25 bp)
ATCAGGTATGCGTCAAGTGTGGCAC
LOC_Os10g18780
OsAffx.22708.4.S1_x_at--505--5937Chr05:5149623..5149647 (25 bp)
GAGCATGAGTCACACTTCACTGTTG
LOC_Os05g09250
OsAffx.22708.4.S1_x_at--775--6231Chr10:9216574..9216598 (25 bp)
GATGGCTGCCATGCAAATCGACAAG
LOC_Os10g18780
OsAffx.22708.4.S1_x_at--313--5297Chr05:5149706..5149730 (25 bp)
GAAGGCAGTGGTTGCAATGCACATC
LOC_Os05g09250
OsAffx.22708.4.S1_x_at--816--5897Chr05:5149764..5149788 (25 bp)
GAGCTGAAGCTCTCAGATGATCTCA
LOC_Os05g09250
Target Sequence 
AAGTATTCTGAACTGGTCTCCGTGCTCTTGGAAGCGCAAGGAGAAGATGAGACACTTGTTGAAAATCATACGTCTCGCCC
CACTGGAAGTTCAGCAGCACCCAAAGCAAATGCTAGCTCCTTTAAGAAGGGGAAAAACCAGAATAACCAGAACAAAGGAA
AGAATTTATGGAAAAATGGTGGCAAAGTAAACAAGACATCTTTCAAGAAGAAAGGAAATCAGAACAGTAAGTCTAAGAAG
GGCTCTACTAGTGGTGAATATGGAAAGCAAGATCAGGTATGCGTCAAGTGTGGCACTAGGGGACACTGGTCTCGCATTTG
CCGCACCCCTAAGCATCTCATTGAGCTTTATCAAGAGAAGCACGGGAAGAAGAAGTCAGAGCATGAGTCACACTTCACTG
TTGAGATCCAGAACTCAGAGCAGAAGATGGCTGCCATGCAAATCGACAAGAAGGTCGATAAGAAGGCAGTGGTTGCAATG
CACATCGATGATAAGATGGAACAGAATGCAGCAGACGCAGAGCTGAAGCTCTCAGATGATCTCA

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.22708.4.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis