Browse Element(s) Details


Os.27639.2.S1_at

Description gb:NM_196056.1
DB_XREF= gi:37533471
TID=Os.27639.2
CNT=3
FEA=mRNA
TIER=ConsEnd
STK=0
UG=Os.27639 (NCBI UniGene Cluster)
DEF=Oryza sativa (japonica cultivar-group) putative gag-pol polyprotein (OSJNBa0073L01.17), mRNA.
PROD=putative gag-pol polyprotein
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os10g2195010/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os10g21930Os.8979.1.S1_at11/1110+10969351..10972284Kelch motif family protein, expressed
LOC_Os10g21940Os.46693.1.S1_at10/1110+10973635..10985691expressed protein
LOC_Os10g21940Os.50959.1.S1_at1/1110+10973635..10985691expressed protein
LOC_Os10g21950Os.27639.2.S1_at10/1110+10992327..11003679retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g21950Os.27639.1.S1_x_at4/1110+10992327..11003679retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g21950OsAffx.8980.1.S1_at3/1110+10992327..11003679retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g21950Os.53731.1.S1_at2/1110+10992327..11003679retrotransposon protein, putative, Ty1-copia subclass
LOC_Os10g21956OsAffx.231.1.S1_at11/1110+11004902..11007528transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g21962NANA10+11008537..11009061transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g21970Os.25164.1.A1_at8/1110+11011214..11012737hypothetical protein
LOC_Os10g21980Os.46692.1.S1_at5/1110+11015033..11021418transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os10g21990OsAffx.30491.1.S1_x_at11/1110+11024546..11025461hypothetical protein
LOC_Os10g21990OsAffx.30491.1.S1_at11/1110+11024546..11025461hypothetical protein
LOC_Os10g22000NANA10+11028081..11031617hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.27639.2.S1_at--836--9511Chr10:10994316..10994340 (25 bp)
TCTCTGTCTGTCCATTTCAACGAAT
LOC_Os10g21950
Os.27639.2.S1_at--870--8991Chr10:10994276..10994300 (25 bp)
TGAATTTTTCCCTGCAAGGAGCCTG
LOC_Os10g21950
Os.27639.2.S1_at--595--1351Chr10:10994176..10994200 (25 bp)
AGAGCTATCTCTGACATCGACTACT
LOC_Os10g21950
Os.27639.2.S1_at--1114--10591Chr10:10994150..10994174 (25 bp)
TTCGGCAGGAACTCTTAACTAGCTT
LOC_Os10g21950
Os.27639.2.S1_at--19--6831Chr10:10994106..10994130 (25 bp)
GTTTATCTCAAACTTGTCGCGCAAA
LOC_Os10g21950
Os.27639.2.S1_at--1139--8691Chr10:10994092..10994116 (25 bp)
TGTCGCGCAAAATCTCGAGGGTTTT
LOC_Os10g21950
Os.27639.2.S1_at--230--2371Chr10:10994045..10994069 (25 bp)
AAAGCCTTCAACGACTATGCATGGT
LOC_Os10g21950
Os.27639.2.S1_at--847--7731Chr10:10994023..10994047 (25 bp)
GGTGGTTCAGAATCCATCATTCCTT
LOC_Os10g21950
Os.27639.2.S1_at--956--8671Chr10:10993969..10993993 (25 bp)
TGTGTCTCTCCAGCTGATGTATGAA
LOC_Os10g21950
Os.27639.2.S1_at--987--4871Chr10:10993180..10993204 (25 bp)
GCTATTGTCTCATCAACACTGGGAT
LOC_Os10g21950
Os.27639.2.S1_at--1143--1291NONE
AGATGAGCTGGTTTCACGTGCTGCT
NONE
Target Sequence 
TCTCTGTCTGTCCATTTCAACGAATGCTCTGAAGACATCATGAATTTTTCCCTGCAAGGAGCCTGCAATCTTTCCACGCT
GAAGCTCCAAGGTGACCTGCACCAAATACCTCCATTTGTTCCCTCATTGGTAGCTCTCACAGAGCTATCTCTGACATCGA
CTACTCTTCGGCAGGAACTCTTAACTAGCTTGACTGAATTGAGATGTCTAGTTTATCTCAAACTTGTCGCGCAAAATCTC
GAGGGTTTTGTCATAAAAGTTGGGGCATTCCAAAGCCTTCAACGACTATGCATGGTGGTTCAGAATCCATCATTCCTTGA
AATCCAGGATGGAGCTCTGCCACAGCTTGTGTCTCTCCAGCTGATGTATGAAAATTTGGCAAACCTTCCTTTAATCAACA
TTGGGGGCATCAAGCGTCTTAGGGAAGTGGTGCTTGATTCTGCGGATAAACATGCGGGAATTGAGGGAATTGCAGCTGTT
TCTATGCTATTGTCTCATCAACACTGGGATAAACTCGCTGGAGATGAGCTGGTTTCACGTGCTGCT

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 Os.27639.2.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis