Browse Element(s) Details


OsAffx.4301.2.S1_at

Description tigr:9633.m01001
TID=OsAffx.4301.2
CNT=1
FEA=mRNA
TIER=ConsEnd
STK=0
NOTE=sequence(s) not in UniGene
DEF=Similar to AGAMOUS-like MADS-box transcriptional factor SMADS42D
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g1138011/11SRF-type transcription factor family protein
LOC_Os05g114142/11Floral homeotic protein AGAMOUS, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g11340OsAffx.26831.1.S1_at11/115+6388276..6389171hypothetical protein
LOC_Os05g11350OsAffx.26832.1.S1_at10/115+6394057..6395676expressed protein
LOC_Os05g11360OsAffx.14636.1.S1_at11/115+6395840..6396442rhamnose biosynthetic enzyme 1, putative
LOC_Os05g11370Os.52040.1.S1_at11/115+6398776..6402275expressed protein
LOC_Os05g11380OsAffx.4301.2.S1_at11/115+6413046..6413875SRF-type transcription factor family protein
LOC_Os05g11390NANA5+6417218..6417933retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g11400OsAffx.11264.1.S1_s_at3/115+6420038..6424007retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g11400OsAffx.20408.1.S1_at1/115+6420038..6424007retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os05g11414Os.48040.1.A1_at11/115+6426199..6437413Floral homeotic protein AGAMOUS, putative, expressed
LOC_Os05g11414OsAffx.14637.1.S1_at11/115+6426199..6437413Floral homeotic protein AGAMOUS, putative, expressed
LOC_Os05g11414OsAffx.4301.1.S1_at8/115+6426199..6437413Floral homeotic protein AGAMOUS, putative, expressed
LOC_Os05g11414OsAffx.4301.2.S1_at2/115+6426199..6437413Floral homeotic protein AGAMOUS, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006355biological_processregulation of transcription, DNA-dependent
GO:0010047biological_processfruit dehiscence
GO:0048440biological_processcarpel development
GO:0048443biological_processstamen development
GO:0048481biological_processovule development
GO:0048497biological_processmaintenance of floral organ identity
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
OsAffx.4301.2.S1_at--112--8331Chr05:6413246..6413270 (25 bp)
GGCTCCGGCAGCTCAGAGGGCTCAA
LOC_Os05g11380
OsAffx.4301.2.S1_at--1120--4251Chr05:6413242..6413266 (25 bp)
CCGGCAGCTCAGAGGGCTCAAGCAT
LOC_Os05g11380
OsAffx.4301.2.S1_at--967--1571Chr05:6413237..6413261 (25 bp)
AGCTCAGAGGGCTCAAGCATCGAGG
LOC_Os05g11380
OsAffx.4301.2.S1_at--924--1331Chr05:6413232..6413256 (25 bp)
AGAGGGCTCAAGCATCGAGGACACA
LOC_Os05g11380
OsAffx.4301.2.S1_at--867--1071Chr05:6413230..6413254 (25 bp)
AGGGCTCAAGCATCGAGGACACAGC
LOC_Os05g11380
OsAffx.4301.2.S1_at--146--2711Chr05:6413223..6413247 (25 bp)
AAGCATCGAGGACACAGCGGACCGT
LOC_Os05g11380
OsAffx.4301.2.S1_at--1134--491Chr05:6413219..6413243 (25 bp)
ATCGAGGACACAGCGGACCGTCAGG
LOC_Os05g11380
OsAffx.4301.2.S1_at--539--6191Chr05:6413216..6413240 (25 bp)
GAGGACACAGCGGACCGTCAGGTCA
LOC_Os05g11380
OsAffx.4301.2.S1_at--151--8151Chr05:6413214..6413238 (25 bp)
GGACACAGCGGACCGTCAGGTCACC
LOC_Os05g11380
OsAffx.4301.2.S1_at--387--6992Chr05:6436436..6436460 (25 bp)
GTACTCCAACAACAGGTACTGCATT
LOC_Os05g11414
OsAffx.4301.2.S1_at--879--3272Chr05:6436430..6436454 (25 bp)
CAACAACAGGTACTGCATTCCTCTT
LOC_Os05g11414
Target Sequence 
GGCTCCGGCAGCTCAGAGGGCTCAAGCATCGAGGACACAGCGGACCGTCAGGTCACCTTCTGCAAGCGCTGCAACGGGCT
ACTCAAGAAGGCGTATGAGCTCTCCATGCTCTGCGATGCCGAGGTTGCCCTCATCGTCTTCTCCAGCCGCGGCCGCCTCT
ACGAGTACTCCAACAACAGGTACTGCATTCCTCTT

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.4301.2.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis