Browse Element(s) Details


Os.5621.1.S1_s_at

Description gb:AK071874.1
DB_XREF= gi:32981897
TID=Os.5621.1
CNT=8
FEA=FLmRNA
TIER=FL
STK=0
UG=Os.5621 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) nifU1 mRNA for NifU1, complete cds
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023121E22, full insert sequence.
FL= gb:AK071874.1 gb:AB096013.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os12g0770011/11nitrogen fixation protein, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os12g07650Os.14148.1.S1_at11/1112+3848390..3852374glutaredoxin-related protein, expressed
LOC_Os12g07670Os.9399.1.S1_at11/1112+3854807..3860044Endomembrane protein 70 containing protein, expressed
LOC_Os12g07670Os.5209.2.S1_at1/1112+3854807..3860044Endomembrane protein 70 containing protein, expressed
LOC_Os12g07680Os.15933.1.A1_at11/1112+3860315..3862882RNase P subunit p30 family protein, expressed
LOC_Os12g07680Os.15933.1.A1_s_at11/1112+3860315..3862882RNase P subunit p30 family protein, expressed
LOC_Os12g07690OsAffx.19537.1.S1_x_at11/1112+3863181..3863606Chalcone and stilbene synthases, N-terminal domain containing protein, expressed
LOC_Os12g07700Os.5621.1.S1_s_at11/1112+3866730..3868852nitrogen fixation protein, putative, expressed
LOC_Os12g07710Os.9156.1.S1_at11/1112+3869943..3870558expressed protein
LOC_Os12g07720Os.276.1.S1_at11/1112+3872349..3876348Activator 1 37 kDa subunit, putative, expressed
LOC_Os12g07730Os.9655.1.S1_s_at11/1112+3878353..3884319SWIRM domain containing protein, expressed
LOC_Os12g07730Os.9655.1.S1_at11/1112+3878353..3884319SWIRM domain containing protein, expressed
LOC_Os12g07740Os.12630.1.S1_at11/1112+3884395..3888692Eukaryotic translation initiation factor 2 gamma subunit, putative, expressed
LOC_Os12g07750OsAffx.22848.4.S1_at2/1112+3892614..3897332retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g07750OsAffx.22848.3.S1_x_at2/1112+3892614..3897332retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os12g07750OsAffx.22848.4.S1_x_at1/1112+3892614..3897332retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
GO:0009658biological_processchloroplast organization and biogenesis
GO:0016226biological_processiron-sulfur cluster assembly
GO:0009507cellular_componentchloroplast
GO:0005198molecular_functionstructural molecule activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5621.1.S1_s_at--784--2231Chr12:3868646..3868670 (25 bp)
AAATTGGTTGCATTTCAGAAGCCTC
LOC_Os12g07700
Os.5621.1.S1_s_at--411--7911Chr12:3868651..3868675 (25 bp)
GGTTGCATTTCAGAAGCCTCACGAA
LOC_Os12g07700
Os.5621.1.S1_s_at--1019--5411Chr12:3868663..3868687 (25 bp)
GAAGCCTCACGAAGAGTTGCCCATC
LOC_Os12g07700
Os.5621.1.S1_s_at--408--2791Chr12:3868674..3868698 (25 bp)
AAGAGTTGCCCATCTTTAGTCAGCA
LOC_Os12g07700
Os.5621.1.S1_s_at--563--4551Chr12:3868681..3868705 (25 bp)
GCCCATCTTTAGTCAGCATTCAGCA
LOC_Os12g07700
Os.5621.1.S1_s_at--424--7111Chr12:3868692..3868716 (25 bp)
GTCAGCATTCAGCACAGGGATCAGA
LOC_Os12g07700
Os.5621.1.S1_s_at--65--9671Chr12:3868700..3868724 (25 bp)
TCAGCACAGGGATCAGATATATCAT
LOC_Os12g07700
Os.5621.1.S1_s_at--807--6511Chr12:3868715..3868739 (25 bp)
GATATATCATATACTATCTGTCTAG
LOC_Os12g07700
Os.5621.1.S1_s_at--161--491Chr12:3868730..3868754 (25 bp)
ATCTGTCTAGATCTGTAATGAAGTT
LOC_Os12g07700
Os.5621.1.S1_s_at--283--3011Chr12:3868746..3868770 (25 bp)
AATGAAGTTTTGATCTGTTCCTCTT
LOC_Os12g07700
Os.5621.1.S1_s_at--468--6411Chr12:3868757..3868781 (25 bp)
GATCTGTTCCTCTTGAAAGAAAGAT
LOC_Os12g07700
Target Sequence 
AAATTGGTTGCATTTCAGAAGCCTCACGAAGAGTTGCCCATCTTTAGTCAGCATTCAGCACAGGGATCAGATATATCATA
TACTATCTGTCTAGATCTGTAATGAAGTTTTGATCTGTTCCTCTTGAAAGAAAGAT

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.5621.1.S1_s_at     

Putative homologies in rice

Putative homologies in arabidopsis