Browse Element(s) Details


OsAffx.30387.1.S1_at

Description gb:NM_195257.1
DB_XREF= gi:37531873
TID=OsAffx.30387.1
CNT=3
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) putative gag-protease polyprotein (OSJNBa0079H13.2), mRNA.
PROD=putative gag-protease polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g1108011/11hypothetical protein
LOC_Os03g455901/11retrotransposon protein, putative, unclassified
LOC_Os09g135101/11retrotransposon protein, putative, unclassified
LOC_Os12g151401/11Zinc knuckle family protein
LOC_Os08g109401/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g11034Os.10707.3.S1_x_at11/1110+5870557..5876316PAP/25A associated domain containing protein, expressed
LOC_Os10g11034Os.10707.2.S1_x_at10/1110+5870557..5876316PAP/25A associated domain containing protein, expressed
LOC_Os10g11034Os.10707.2.S1_at10/1110+5870557..5876316PAP/25A associated domain containing protein, expressed
LOC_Os10g11034Os.50043.1.A1_at1/1110+5870557..5876316PAP/25A associated domain containing protein, expressed
LOC_Os10g11034Os.10675.1.A1_at1/1110+5870557..5876316PAP/25A associated domain containing protein, expressed
LOC_Os10g11060Os.46712.1.S1_x_at11/1110+5877600..5881295expressed protein
LOC_Os10g11060Os.50623.1.S1_at10/1110+5877600..5881295expressed protein
LOC_Os10g11070OsAffx.20650.1.S1_at11/1110+5886114..5889044retrotransposon protein, putative, unclassified
LOC_Os10g11070Os.46012.2.S1_x_at2/1110+5886114..5889044retrotransposon protein, putative, unclassified
LOC_Os10g11070Os.46012.3.S1_x_at2/1110+5886114..5889044retrotransposon protein, putative, unclassified
LOC_Os10g11070Os.27088.1.A1_x_at1/1110+5886114..5889044retrotransposon protein, putative, unclassified
LOC_Os10g11070OsAffx.3521.1.S1_at1/1110+5886114..5889044retrotransposon protein, putative, unclassified
LOC_Os10g11070OsAffx.3521.1.S1_x_at1/1110+5886114..5889044retrotransposon protein, putative, unclassified
LOC_Os10g11070OsAffx.20650.2.S1_at1/1110+5886114..5889044retrotransposon protein, putative, unclassified
LOC_Os10g11080OsAffx.30387.1.S1_at11/1110+5892614..5894925hypothetical protein
LOC_Os10g11080Os.54408.1.S1_x_at1/1110+5892614..5894925hypothetical protein
LOC_Os10g11080Os.54408.1.S1_at1/1110+5892614..5894925hypothetical protein
LOC_Os10g11090Os.2235.3.S1_x_at11/1110+5900922..5902664retrotransposon protein, putative, unclassified
LOC_Os10g11100Os.46874.1.S1_at11/1110+5904132..5909191retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os10g11100Os.46874.1.S1_x_at11/1110+5904132..5909191retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os10g11100Os.8976.1.S1_at4/1110+5904132..5909191retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os10g11100Os.38444.1.S1_x_at2/1110+5904132..5909191retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os10g11100Os.38444.2.S1_x_at1/1110+5904132..5909191retrotransposon protein, putative, Ty3-gypsy subclass, expressed
LOC_Os10g11110Os.18580.1.S1_at11/1110+5910667..5916587expressed protein
LOC_Os10g11110Os.27021.1.S1_x_at1/1110+5910667..5916587expressed protein
LOC_Os10g11110Os.53962.1.S1_at1/1110+5910667..5916587expressed protein
LOC_Os10g11120Os.38751.1.A1_at7/1110+5919334..5920860retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os10g11120Os.49802.1.S2_at1/1110+5919334..5920860retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.30387.1.S1_at--578--10312Chr06:14883272..14883350 (25 bp)
TTTCTCGAGCTATAAGACTTGGTCA
NONE
OsAffx.30387.1.S1_at--248--5692Chr06:14883341..14883365 (25 bp)
GACTTGGTCATCTTCGATCTCATTG
NONE
OsAffx.30387.1.S1_at--747--6291Chr10:5894010..5894034 (25 bp)
GATGATATCAAGAACACCAAGCAGA
LOC_Os10g11080
OsAffx.30387.1.S1_at--932--3233Chr09:7818935..7818959 (25 bp)
CAAGAATGATGTTTGTCTCATGGCT
LOC_Os09g13510
OsAffx.30387.1.S1_at--252--6032Chr03:25681478..25681498 (21 bp)
GAGATGGTCATCTTGTTGGTTTCTG
LOC_Os03g45590
OsAffx.30387.1.S1_at--309--8593Chr12:8634531..8634551 (21 bp)
TGGTTTCTGTTTTAGACTTGCTAGA
LOC_Os12g15140
OsAffx.30387.1.S1_at--225--2251Chr10:5892768..5892792 (25 bp)
AAAAACGTGTTGAGACAGGCGGTCA
LOC_Os10g11080
OsAffx.30387.1.S1_at--361--7091Chr10:5892723..5892747 (25 bp)
GTCAGACCGGCGGTAAGCCCTTGGT
LOC_Os10g11080
OsAffx.30387.1.S1_at--202--7051Chr10:5892711..5892735 (25 bp)
GTAAGCCCTTGGTCAGACCGCTGCA
LOC_Os10g11080
OsAffx.30387.1.S1_at--645--1611Chr10:5892682..5892706 (25 bp)
AGCGGTCAAACTGGCCTCGGGTATA
LOC_Os10g11080
OsAffx.30387.1.S1_at--536--8452Chr10:5892671..5892695 (25 bp)
TGGCCTCGGGTATATTTTTCTAACG
LOC_Os10g11080
Target Sequence 
TTTCTCGAGCTATAAGACTTGGTCATCTTCGATCTCATTGTAACAAGCTTGGAAGGAATCCAAAAGAACCTCAAGATGAT
ATCAAGAACACCAAGCAGAACAAGAAGCAATTCAAGAACATGAAGATGAAGAAGTTCTATCAGAAGGCGCTTGATGAGGC
ATTTGCGGCTGTTCAAGAATCAAGCGATGTTGAGTTTGAAAGTGATGAAGATGATGACAAGGGGAACAAAGGCAAGAATG
ATGTTTGTCTCATGGCTAGAAGCGTGGATGAAGATTCTGACTGTGATAATGAGATGGTCATCTTGTTGGTTTCTGTTTTA
GACTTGCTAGAAAACAGAAAAAAGAACAGGAAATTGCTTTTGCGAAAAATAGGTGGCAAAAAACGTGTTGAGACAGGCGG
TCAGAACCGGCGCTTTACCCCCGGTCAGACCGGCGGTAAGCCCTTGGTCAGACCGCTGCACCTCAGCGGTCAAACTGGCC
TCGGGTATATTTTTCTAACG

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.30387.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis