Browse Element(s) Details


OsAffx.18625.3.S1_x_at

Description tigr:9639.m00064
TID=OsAffx.18625.3
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Similar to RNA polymerase II largest subunit
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os11g0163011/11RNA polymerase Rpb1, domain 2 family protein
LOC_Os12g017106/11hypothetical protein
LOC_Os05g058604/11DNA-directed RNA polymerase II largest subunit, putative
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os11g01590Os.52259.1.S1_at11/1111+340402..344822Major Facilitator Superfamily protein, expressed
LOC_Os11g01600Os.5521.1.A1_at11/1111+351202..354323Macrophage migration inhibitory factor family protein, expressed
LOC_Os11g01600OsAffx.25952.1.S1_s_at11/1111+351202..354323Macrophage migration inhibitory factor family protein, expressed
LOC_Os11g01600OsAffx.25952.1.S1_x_at10/1111+351202..354323Macrophage migration inhibitory factor family protein, expressed
LOC_Os11g01610OsAffx.31541.1.S1_s_at11/1111+355675..356661PRA1 family protein, expressed
LOC_Os11g01620Os.47316.1.S1_at11/1111+358314..361653Leucine Rich Repeat family protein, expressed
LOC_Os11g01620Os.47316.2.S1_at9/1111+358314..361653Leucine Rich Repeat family protein, expressed
LOC_Os11g01630OsAffx.18625.3.S1_x_at11/1111+361999..365411RNA polymerase Rpb1, domain 2 family protein
LOC_Os11g01630OsAffx.18625.3.S1_at11/1111+361999..365411RNA polymerase Rpb1, domain 2 family protein
LOC_Os11g01630OsAffx.18625.4.S1_x_at7/1111+361999..365411RNA polymerase Rpb1, domain 2 family protein
LOC_Os11g01630OsAffx.5875.1.S1_at1/1111+361999..365411RNA polymerase Rpb1, domain 2 family protein
LOC_Os11g01630Os.27102.1.S1_x_at1/1111+361999..365411RNA polymerase Rpb1, domain 2 family protein
LOC_Os11g01650OsAffx.18625.5.S1_s_at11/1111+368398..368806hypothetical protein
LOC_Os11g01660OsAffx.6959.1.S1_x_at11/1111+369387..369803hypothetical protein
LOC_Os11g01670OsAffx.18626.1.S1_at11/1111+371081..372297hypothetical protein
LOC_Os11g01670OsAffx.15580.1.S1_at1/1111+371081..372297hypothetical protein
LOC_Os11g01690NANA11+375049..376541hypothetical protein
LOC_Os11g01700NANA11+377352..381272retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g01710OsAffx.22892.1.S1_at1/1111+382820..384480retrotransposon protein, putative, Ty1-copia subclass
LOC_Os11g01720NANA11+384860..386233expressed 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.18625.3.S1_x_at--233--1152Chr11:444292..444316 (25 bp)
AGTCCGTATGCTCCGTGGCTTGAAG
NONE
OsAffx.18625.3.S1_x_at--813--8432Chr12:422330..422353 (24 bp)
GGCCAAGTCATCCTACCTATGATAT
LOC_Os12g01710
OsAffx.18625.3.S1_x_at--604--8832Chr12:422311..422335 (25 bp)
TGATATTTGATTGCGCCACCATTTT
LOC_Os12g01710
OsAffx.18625.3.S1_x_at--383--6771Chr11:362691..362715 (25 bp)
GTTACAGACTGCTGTTCGCCACAGA
LOC_Os11g01630
OsAffx.18625.3.S1_x_at--1156--2674Chr12:421614..421635 (22 bp)
AAGCGTGTTGATTTCTCAGCTCTGC
LOC_Os12g01710
OsAffx.18625.3.S1_x_at--368--10471Chr11:362497..362519 (23 bp)
TTACTCCATATAACTTCCAAGGTGC
LOC_Os11g01630
OsAffx.18625.3.S1_x_at--1085--8052Chr12:421389..421413 (25 bp)
GGAGACGCTCAAAGGCTTGATCTTT
LOC_Os12g01710
OsAffx.18625.3.S1_x_at--890--10793Chr12:421191..421215 (25 bp)
TTGTTCTTTTCAATCGGCAACCCAG
LOC_Os12g01710
OsAffx.18625.3.S1_x_at--631--8233Chr12:421176..421200 (25 bp)
GGCAACCCAGTCTTCACAAAATGTA
LOC_Os12g01710
OsAffx.18625.3.S1_x_at--131--9831Chr11:362110..362134 (25 bp)
TAAAATCATGCCCTATTCAACCTTC
LOC_Os11g01630
OsAffx.18625.3.S1_x_at--672--5233Chr12:421052..421076 (25 bp)
GAATATGCATGTTCCTCAGTCATTT
NONE
Target Sequence 
AGTCCGTATGCTCCGTGGCTTGAAGGGAAAAGCACATGGCCAAGTCATCCTACCTATGATATTTGATTGCGCCACCATTT
TGGTGTTACAGACTGCTGTTCGCCACAGATTAGCAAAAGTCCAGGGGTATCTAAAAGCAAAGGAACGCAGCAGTAGAGGA
AATTTGATGGGGAAGCGTGTTGATTTCTCAGCTCTGCCATGGAGTATTGCTTTGAACCTTACATACCCAGAAACTGTTAC
TCCATATAACTTCCAAGGTGCAAAGTACATTATCTGGGGAGACGCTCAAAGGCTTGATCTTTGTTATGTGAAGAAAAGAA
CTGATCAGTATCTGGAACTGGGTTACAATGTGGAAAGGCACCTTGATGATGGTGATTTTGTTCTTTTCAATCGGCAACCC
AGTCTTCACAAAATGTATATCATGGGGCATCGCATTAAAATCATGCCCTATTCAACCTTCCACTTAAACTTGTCCGCCAC
TTCGCCGTACAATGCAGATTTTGATGGGGATGAAATGAATATGCATGTTCCTCAGTCATTT

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.18625.3.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis