Browse Element(s) Details


OsAffx.24029.2.S1_x_at

Description tigr:9629.m07272
TID=OsAffx.24029.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=RNA polymerase Rpb1, domain 2, putative
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g7343011/11RNA polymerase Rpb1, domain 2 family protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g73370OsAffx.21929.1.S1_at11/111+42853759..42854229LRK14, putative
LOC_Os01g73370OsAffx.21929.1.S1_x_at10/111+42853759..42854229LRK14, putative
LOC_Os01g73380OsAffx.30226.2.S1_s_at7/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73380OsAffx.442.1.S1_x_at5/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73380OsAffx.24587.1.S1_x_at3/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73380OsAffx.30226.4.S1_x_at3/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73380OsAffx.442.1.S1_at3/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73380OsAffx.30226.1.S1_x_at3/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73380OsAffx.30226.2.S1_x_at2/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73380OsAffx.30226.1.S1_at2/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73380OsAffx.30226.4.S1_at1/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73380OsAffx.19052.1.S1_at1/111+42854725..42858693retrotransposon protein, putative, Ty1-copia subclass
LOC_Os01g73390OsAffx.24027.1.S1_at11/111+42859099..42860801hypothetical protein
LOC_Os01g73400OsAffx.24028.1.S1_at11/111+42864536..42864797hypothetical protein
LOC_Os01g73410Os.31375.1.S2_at11/111+42868178..42873927Chromosome condensation factor, putative, expressed
LOC_Os01g73410Os.31375.1.S1_at11/111+42868178..42873927Chromosome condensation factor, putative, expressed
LOC_Os01g73420Os.6110.1.S1_at11/111+42874549..42875838Mitochondrial carrier protein, expressed
LOC_Os01g73430OsAffx.24029.2.S1_x_at11/111+42876691..42883710RNA polymerase Rpb1, domain 2 family protein
LOC_Os01g73440OsAffx.24030.1.S1_at11/111+42885896..42886801hypothetical protein
LOC_Os01g73440OsAffx.24030.1.S1_x_at11/111+42885896..42886801hypothetical protein
LOC_Os01g73450Os.11630.1.S1_at11/111+42889671..42893841Uridylate kinase, putative, expressed
LOC_Os01g73460Os.26985.1.S1_at9/111+42894691..42899924PHD finger family protein, putative, expressed
LOC_Os01g73470Os.5947.1.S1_at11/111+42901703..42904665Growth inhibition and differentiation-related protein 88 homolog, putative, expressed
LOC_Os01g73480OsAffx.11840.1.S1_x_at11/111+42906190..42910493acetyltransferase, GNAT family protein
LOC_Os01g73480OsAffx.11840.2.S1_at10/111+42906190..42910493acetyltransferase, GNAT family protein
LOC_Os01g73480OsAffx.26722.2.S1_s_at1/111+42906190..42910493acetyltransferase, GNAT family protein

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Gene Ontology Classification
GO idTypeName
GO:0006306biological_processDNA methylation
GO:0006350biological_processtranscription
GO:0035194biological_processRNA-mediated posttranscriptional gene silencing
GO:0005634cellular_componentnucleus
GO:0030880cellular_componentRNA polymerase complex
GO:0003677molecular_functionDNA binding
GO:0003899molecular_functionDNA-directed RNA polymerase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.24029.2.S1_x_at--566--1691Chr01:42877452..42877476 (25 bp)
ACCACACCGTGGAGGCAGTAGCAGT
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--1064--391Chr01:42877392..42877416 (25 bp)
ATCAGAGGCATCACACCGAGGCAGT
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--1111--2251Chr01:42877328..42877352 (25 bp)
AAATCAGAGGCATCACGCCGTGGAG
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--275--6971Chr01:42877289..42877313 (25 bp)
GTAGCGAGTTGTGCTTTTACACCAG
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--589--5751Chr01:42877016..42877040 (25 bp)
GACGGTATTAAACTTCCTCCAGATG
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--1064--2271Chr01:42876972..42876996 (25 bp)
AAATGTTCTCATGTACCACCCAGAG
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--168--6491Chr01:42876936..42876960 (25 bp)
GATAGCTGGCAACGGCAACTACATA
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--465--1131Chr01:42876826..42876849 (24 bp)
AGTCGATAGGCATCAGGTATTCCAT
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--1068--751Chr01:42876785..42876809 (25 bp)
ATGTCATGTCCTCAGATGGATCCAG
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--629--6531Chr01:42876756..42876780 (25 bp)
GATTTCTCCTACAAGAAGTGCCTGG
LOC_Os01g73430
OsAffx.24029.2.S1_x_at--1075--391Chr01:42876723..42876747 (25 bp)
ATCAGAGCTCAGTACCCAGATGCTG
LOC_Os01g73430
Target Sequence 
ACCACACCGTGGAGGCAGTAGCAGTAATAGGAATCAAGGTGGTGGTAGAGCAGTGTGGAAATCAGAGGCATCACACCGAG
GCAGTGGCAATAATAGGAATCGAGGTGGTGGTAGAGCAGTGTGGAAATCAGAGGCATCACGCCGTGGAGGCAGTATGAGG
CAGGTAGCGAGTTGTGCTTTTACACCAGTGGAGCAGCAGATATTTGAACAAATCGAACCAATCACAAAGAATGTAAAGAG
GATCATCCGTGAATCGAGGGACGGTATTAAACTTCCTCCAGATGATGAGAAGTTTATTGTCACAAATGTTCTCATGTACC
ACCCAGAGAGGAAGAAGAAGATAGCTGGCAACGGCAACTACATAACAGTCGATAGGCATCAGGTATTCCATGGAAGTAGG
TGCTTATATGTCATGTCCTCAGATGGATCCAGAAAAGATTTCTCCTACAAGAAGTGCCTGGAGAACTACATCAGAGCTCA
GTACCCAGATGCTG

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.24029.2.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis