Browse Element(s) Details


OsAffx.18625.2.S1_x_at

Description tigr:9636.m00525
TID=OsAffx.18625.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=dna-directed rna polymerase ii largest subunit (ec 2.7.7.6). (mouse-ear cress
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g0594011/11transposon protein, putative, unclassified, expressed
LOC_Os05g058601/11DNA-directed RNA polymerase II largest subunit, putative
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g05930Os.10703.2.S1_x_at1/118+3193079..3198727retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g05940Os.36679.1.S1_at11/118+3217882..3223078transposon protein, putative, unclassified, expressed
LOC_Os08g05940OsAffx.18625.2.S1_at11/118+3217882..3223078transposon protein, putative, unclassified, expressed
LOC_Os08g05940OsAffx.18625.2.S1_x_at11/118+3217882..3223078transposon protein, putative, unclassified, expressed
LOC_Os08g05950NANA8+3233284..3233839hypothetical protein
LOC_Os08g05960Os.10682.1.S1_at6/118+3236459..3237086expressed protein
LOC_Os08g05970OsAffx.16847.1.S1_s_at11/118+3238105..3238711expressed protein
LOC_Os08g05980NANA8+3241972..3242205expressed protein
LOC_Os08g05990Os.40855.5.S1_x_at10/118+3247833..3250578hypothetical protein
LOC_Os08g05990Os.40360.1.S1_at9/118+3247833..3250578hypothetical protein
LOC_Os08g05990Os.40360.1.S1_x_at8/118+3247833..3250578hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0006350biological_processtranscription
GO:0009827biological_processcell wall modification (sensu Magnoliophyta)
GO:0009845biological_processseed germination
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003899molecular_functionDNA-directed RNA polymerase activity
GO:0005199molecular_functionstructural constituent of cell wall
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.18625.2.S1_x_at--1049--2072Chr08:3220351..3220375 (25 bp)
ACATCACCATCATATAGCCCAACAT
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--411--471Chr08:3220328..3220352 (25 bp)
ATCTCCATCATACAGTCCAACATCT
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--794--7011Chr08:3220256..3220280 (25 bp)
GTACAGTCCGACATCTCCTGCATAC
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--1005--9871Chr08:3220226..3220250 (25 bp)
TACATCACCTGGTTACAGCCCGACA
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--886--4831Chr08:3220194..3220218 (25 bp)
GCTACAGCCCAACTTCACCAAATTA
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--1083--131Chr08:3220173..3220197 (25 bp)
ATTACAGTCCAACTTCACCAAGCTA
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--493--2231Chr08:3220149..3220173 (25 bp)
ACAATCCTTCTTCGGCCAAGTACAG
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--446--9591Chr08:3219911..3219935 (25 bp)
TCATATTCACAACCAAGTCCGTCAT
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--594--2671Chr08:3218920..3218943 (24 bp)
AAGCCCATACACCACATCTGGAGGG
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--1081--151Chr08:3218885..3218909 (25 bp)
ATTATAGCCCAACATCTCCGAATTA
LOC_Os08g05940
OsAffx.18625.2.S1_x_at--805--5171Chr08:3218399..3218419 (21 bp)
GAATTACAGCCCTAGCGGAAGCTAC
LOC_Os08g05940
Target Sequence 
ACATCACCATCATATAGCCCAACATCTCCATCATACAGTCCAACATCTCCGTCTTACAGCCCCACTTCCCCCTCATACAG
TCCGACATCACCCTCGTACAGTCCGACATCTCCTGCATACAGCCCTACATCACCTGGTTACAGCCCGACATCTCCAAGCT
ACAGCCCAACTTCACCAAATTACAGTCCAACTTCACCAAGCTACAATCCTTCTTCGGCCAAGTACAGTCCTTCCCACGCG
TACTCTCCAAGCAGCCCAAGGCTGAGCCCTTATAGTCAGACTTCACCAAATTACAGCCCAACATCGCCGACATACTCACC
TACCTCACCATCATATTCACAACCAAGTCCGTCATACAGCCCAACAAGCCCATACACCACATCTGGAGGGCCCAGCCCAG
ATTATAGCCCAACATCTCCGAATTACAGCCCTAGCGGAAGCTAC

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.18625.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis