Browse Element(s) Details


OsAffx.940.1.S1_x_at

Description gb:NM_191570.1
DB_XREF= gi:34910223
GEN=B1060H01.26
TID=OsAffx.940.1
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Oryza sativa (japonica cultivar-group) B1060H01.26 (B1060H01.26), mRNA.
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g310202/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g357882/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g182602/11hypothetical protein
LOC_Os12g250402/11retrotransposon protein, putative, unclassified
LOC_Os06g314102/11transposon protein, putative, unclassified
LOC_Os01g309901/11transposon protein, putative, unclassified
LOC_Os09g033001/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os01g636301/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g246701/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os04g115901/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g177001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os07g204501/11retrotransposon protein, putative, unclassified
LOC_Os06g392101/11transposon protein, putative, Mutator sub-class, expressed
LOC_Os01g395801/11Anthocyanin regulatory Lc protein, putative
LOC_Os06g152001/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os06g292701/11retrotransposon protein, putative, unclassified
LOC_Os01g280601/11transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os05g210801/11transposon protein, putative, unclassified
LOC_Os12g181901/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g324101/11retrotransposon protein, putative, unclassified
LOC_Os02g164001/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g280001/11retrotransposon protein, putative, unclassified
LOC_Os05g329201/11hypothetical protein
LOC_Os08g245301/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os03g329401/11transposon protein, putative, unclassified
LOC_Os10g017701/11transposon protein, putative, unclassified
LOC_Os07g177201/11retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g264801/11transposon protein, putative, unclassified
LOC_Os11g168101/11transposon protein, putative, unclassified
LOC_Os07g176401/11transposon protein, putative, unclassified
LOC_Os05g178901/11transposon protein, putative, unclassified
LOC_Os02g332701/11retrotransposon protein, putative, unclassified
LOC_Os07g263601/11retrotransposon protein, putative, unclassified
LOC_Os08g227401/11retrotransposon protein, putative, unclassified
LOC_Os07g157101/11transposon protein, putative, unclassified
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g30980OsAffx.19946.1.S1_at1/111+17258651..17264264retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g30980OsAffx.31892.2.S1_x_at1/111+17258651..17264264retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g30990OsAffx.24416.1.S1_at2/111+17265335..17266642transposon protein, putative, unclassified
LOC_Os01g30990OsAffx.24416.1.S1_x_at1/111+17265335..17266642transposon protein, putative, unclassified
LOC_Os01g30990OsAffx.23458.2.S1_at1/111+17265335..17266642transposon protein, putative, unclassified
LOC_Os01g30990OsAffx.22896.1.S1_x_at1/111+17265335..17266642transposon protein, putative, unclassified
LOC_Os01g30990OsAffx.940.1.S1_x_at1/111+17265335..17266642transposon protein, putative, unclassified
LOC_Os01g31000NANA1+17281269..17283630hypothetical protein
LOC_Os01g31010Os.19099.1.S1_x_at1/111+17284003..17285637retrotransposon, putative, centromere-specific
LOC_Os01g31020OsAffx.3613.1.S1_x_at3/111+17288136..17300600retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31020OsAffx.3613.1.S1_at3/111+17288136..17300600retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31020OsAffx.940.1.S1_x_at2/111+17288136..17300600retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31020OsAffx.27522.1.S1_x_at2/111+17288136..17300600retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31020Os.46314.2.S1_x_at2/111+17288136..17300600retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31020OsAffx.31892.2.S1_x_at1/111+17288136..17300600retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31020Os.10731.2.A1_at1/111+17288136..17300600retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31020OsAffx.16187.1.S1_at1/111+17288136..17300600retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31030NANA1+17301626..17302338retrotransposon, putative, centromere-specific
LOC_Os01g31040NANA1+17303804..17305950retrotransposon, putative, centromere-specific
LOC_Os01g31050OsAffx.11261.1.S1_at11/111+17309014..17309853hypothetical protein
LOC_Os01g31070OsAffx.16343.1.S1_at1/111+17314501..17315839retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g31080NANA1+17316231..17318848retrotransposon protein, putative, unclassified

Select all/Clear all

Gene Ontology Classification
GO idTypeName
GO:0001708biological_processcell fate specification
GO:0009957biological_processepidermal cell fate specification
GO:0045449biological_processregulation of transcription
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.940.1.S1_x_at--169--8392Chr08:13042173..13042192 (20 bp)
GGCGAGCGGAGAGAGCCGGCCAAAG
NONE
OsAffx.940.1.S1_x_at--7--1671Chr01:31026747..31026771 (25 bp)
AGCCGGCCAAAGGTCGTCGGCGACA
NONE
OsAffx.940.1.S1_x_at--730--7576Chr12:14811391..14811414 (24 bp)
GGGCGACGGTGCGAGCTCGATTCCA
NONE
OsAffx.940.1.S1_x_at--712--9153Chr01:22649995..22650018 (24 bp)
TGCGAGCTCGATTCCAGCGAGGAGA
LOC_Os01g39580
OsAffx.940.1.S1_x_at--648--5973Chr12:14371434..14371459 (25 bp)
GAGACGGCGCGGCAAAGGTGGAAAC
LOC_Os12g25040
OsAffx.940.1.S1_x_at--794--725204Chr12:15478301..15478323 (23 bp)
GTCCGGCCGCCATCAATGGCGCCAA
NONE
OsAffx.940.1.S1_x_at--126--8451Chr01:31026562..31026586 (25 bp)
TGGCGCCAACGAGATTTGCGGGAAC
NONE
OsAffx.940.1.S1_x_at--822--4151Chr01:31026559..31026583 (25 bp)
CGCCAACGAGATTTGCGGGAACAAA
NONE
OsAffx.940.1.S1_x_at--336--6051Chr01:31026550..31026574 (25 bp)
GATTTGCGGGAACAAATCCGCCCGT
NONE
OsAffx.940.1.S1_x_at--1160--8953Chr07:10457994..10458120 (25 bp)
TGCGGGAACAAATCCGCCCGTTTGA
NONE
OsAffx.940.1.S1_x_at--567--21919Chr08:13897404..13897427 (24 bp)
ACAAATCCGCCCGTTTGAATGCGAG
NONE
Target Sequence 
GGCGAGCGGAGAGAGCCGGCCAAAGGTCGTCGGCGACAGAGGAGAGAGAGGGCGACGGTGCGAGCTCGATTCCAGCGAGG
AGACGGCGCGGCAAAGGTGGAAACGGGTGAGGTGCGGGGAGGGTTTAAATAGGGTTGGAAGGGGGAGAGGGCGGCCGGGG
AAGGAAGGAAACCGGCCGGGAGGTCCGGCCGCCATCAATGGCGCCAACGAGATTTGCGGGAACAAATCCGCCCGTTTGAA
TGCGAG

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.940.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis