Browse Element(s) Details


Os.53807.1.S2_at

Description gb:AK100180.1
DB_XREF= gi:32985389
TID=Os.53807.1
CNT=3
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53807 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) mRNA for PCF1, complete cds
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023030B07, full insert sequence.
FL= gb:D87260.1 gb:AK100180.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g1183011/11PCF2 DNA binding protein, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g11800OsAffx.25986.1.S1_at11/114+6445205..6446591hypothetical protein
LOC_Os04g11810OsAffx.25987.1.S1_at11/114+6451810..6453135Transferase family protein, expressed
LOC_Os04g11820Os.50428.1.S1_at11/114+6455359..6461783ABC-2 type transporter family protein, expressed
LOC_Os04g11830Os.53807.1.S2_at11/114+6470913..6475626PCF2 DNA binding protein, putative, expressed
LOC_Os04g11830Os.53807.1.S1_at11/114+6470913..6475626PCF2 DNA binding protein, putative, expressed
LOC_Os04g11840NANA4+6479161..6479631hypothetical protein
LOC_Os04g11850Os.51062.1.S1_at5/114+6481594..6483296hypothetical protein
LOC_Os04g11850Os.51062.1.S1_x_at4/114+6481594..6483296hypothetical protein
LOC_Os04g11850OsAffx.27771.2.S1_s_at4/114+6481594..6483296hypothetical protein
LOC_Os04g11850OsAffx.27771.1.S1_x_at3/114+6481594..6483296hypothetical protein
LOC_Os04g11850Os.53560.1.S1_at2/114+6481594..6483296hypothetical protein
LOC_Os04g11850Os.36875.1.A1_at1/114+6481594..6483296hypothetical protein
LOC_Os04g11860OsAffx.13781.1.S1_at11/114+6484277..6485222hypothetical protein
LOC_Os04g11870NANA4+6490557..6491107hypothetical protein
LOC_Os04g11880Os.8814.1.S1_at11/114+6491586..6498899Vacuolar assembly protein VPS41 homolog, putative, expressed
LOC_Os04g11890Os.54963.1.S1_at11/114+6500544..6502281F-box domain containing protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0009653biological_processmorphogenesis
GO:0045449biological_processregulation of transcription
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53807.1.S2_at--2--5871Chr04:6471417..6471441 (25 bp)
GACCAATGCACTTTTGTCATCATCT
LOC_Os04g11830
Os.53807.1.S2_at--562--8971Chr04:6471336..6471360 (25 bp)
TGAAACCCATTGTACCAGCTCTGTT
LOC_Os04g11830
Os.53807.1.S2_at--909--1171Chr04:6471283..6471307 (25 bp)
AGTACACTGACCTAGGATGGCTCCC
LOC_Os04g11830
Os.53807.1.S2_at--711--6231Chr04:6471268..6471292 (25 bp)
GATGGCTCCCAAGCAAGGACCAGGA
LOC_Os04g11830
Os.53807.1.S2_at--327--7951Chr04:6471170..6471194 (25 bp)
GGAGTCGTTTTTTAGCAGCGGTAGC
LOC_Os04g11830
Os.53807.1.S2_at--723--3413Chr09:11741978..11742001 (24 bp)
CAGCAATTTTGAACTGCCGCAGCCT
NONE
Os.53807.1.S2_at--840--4751Chr04:6471069..6471093 (25 bp)
GCTGCTGAACAGAGCCCTTATTGTT
LOC_Os04g11830
Os.53807.1.S2_at--521--51Chr04:6471050..6471074 (25 bp)
ATTGTTCAATTATCACCCTGTGACA
LOC_Os04g11830
Os.53807.1.S2_at--904--5291Chr04:6471016..6471040 (25 bp)
GAAGGCAAGCTTCTGCATCTAGAAT
LOC_Os04g11830
Os.53807.1.S2_at--938--7831Chr04:6470982..6471006 (25 bp)
GGTACTTATAGTTCTTGCGTGACAT
LOC_Os04g11830
Os.53807.1.S2_at--42--9151Chr04:6470967..6470991 (25 bp)
TGCGTGACATTTGTTCTGGCACAAT
LOC_Os04g11830
Target Sequence 
GACCAATGCACTTTTGTCATCATCTGATTAGTGTTATCATCTGAAAACCAATCTGTATTTCAATGTGTTTTAATCTTCAT
CTGAAACCCATTGTACCAGCTCTGTTCCTTGACCACAAATCCAACTTGCAGAGAAGTACACTGACCTAGGATGGCTCCCA
AGCAAGGACCAGGAAGTATACATCTAAAAAATAAAGCATTTTTTGTGCCCAAACATTTATGGTCTTGAACATCTTGGGTG
TGTTTTGGGAGTCGTTTTTTAGCAGCGGTAGCAGCTGGAGCAGTTCAAAGTGGCTGCAGTTTGCAGCAATTTTGAACTGC
CGCAGCCTCAGCAGCTGTGGCAGGTATGGCTGCTGAACAGAGCCCTTATTGTTCAATTATCACCCTGTGACAGGACTTTC
TGAAGGCAAGCTTCTGCATCTAGAATTTCTATTTTGGTACTTATAGTTCTTGCGTGACATTTGTTCTGGCACAAT

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.53807.1.S2_at     

Putative homologies in rice

Putative homologies in arabidopsis