Browse Element(s) Details


Os.53504.1.S1_at

Description gb:AK072992.1
DB_XREF= gi:32983015
TID=Os.53504.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53504 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023147N17, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023147N17, full insert sequence.
FL= gb:AK072992.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g4345011/11Transcription initiation factor IIF, beta subunit family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g43400OsAffx.15084.1.S1_at11/115+25152634..25154489hypothetical protein
LOC_Os05g43410NANA5+25156077..25162231retrotransposon protein, putative, unclassified
LOC_Os05g43420NANA5+25162852..25166143retrotransposon protein, putative, unclassified
LOC_Os05g43440Os.22455.1.A1_at9/115+25171607..25176541Single-strand binding protein family protein, expressed
LOC_Os05g43450Os.53504.1.S1_at11/115+25177479..25180516Transcription initiation factor IIF, beta subunit family protein, expressed
LOC_Os05g43460Os.14885.1.S1_at9/115+25183001..25184001expressed protein
LOC_Os05g43470Os.5176.1.S1_at10/115+25184696..25189013chloroplast outer membrane protein, putative, expressed
LOC_Os05g43480Os.10062.1.S1_at10/115+25191183..25196932Ubiquitin carboxyl-terminal hydrolase family protein, expressed
LOC_Os05g43490Os.18454.2.S1_a_at11/115+25199902..25203459F-box family protein, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006367biological_processtranscription initiation from RNA polymerase II promoter
GO:0005674cellular_componenttranscription factor TFIIF complex
GO:0005739cellular_componentmitochondrion
GO:0003702molecular_functionRNA polymerase II transcription factor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53504.1.S1_at--684--2151Chr05:25178197..25178221 (25 bp)
ACACCAACCAAACCATCTGATGCAA
LOC_Os05g43450
Os.53504.1.S1_at--177--2311Chr05:25178096..25178120 (25 bp)
AAAGGCGCTGGTGCAAGAAACTGAC
LOC_Os05g43450
Os.53504.1.S1_at--315--8931Chr05:25177925..25178099 (25 bp)
TGACCAGCCAGAGCAATTCCTGAAG
LOC_Os05g43450
Os.53504.1.S1_at--235--8171Chr05:25177852..25177876 (25 bp)
GGAACGCATGAGCTCAAGCCTGAGT
LOC_Os05g43450
Os.53504.1.S1_at--1130--7611Chr05:25177812..25177836 (25 bp)
GGGACACTGATGCTTCTTGAATATG
LOC_Os05g43450
Os.53504.1.S1_at--103--6751Chr05:25177784..25177808 (25 bp)
GTTCATTTAACTGCTTTCGGATAAC
LOC_Os05g43450
Os.53504.1.S1_at--1159--7331Chr05:25177715..25177739 (25 bp)
GTGCAGACATCTCATATTTCAGTAA
LOC_Os05g43450
Os.53504.1.S1_at--529--1171Chr05:25177695..25177719 (25 bp)
AGTAACATTCGTTCTGCTGCTAAAT
LOC_Os05g43450
Os.53504.1.S1_at--423--3091Chr05:25177575..25177599 (25 bp)
AATAATGTGCCTGGTGGGAGTCGCA
LOC_Os05g43450
Os.53504.1.S1_at--11--7231Chr05:25177556..25177580 (25 bp)
GTCGCAGCGTAGAGCATAGTCCTAT
LOC_Os05g43450
Os.53504.1.S1_at--966--4731Chr05:25177509..25177533 (25 bp)
GCTGTTTTTATGTCTCATTTCATCA
LOC_Os05g43450
Target Sequence 
ACACCAACCAAACCATCTGATGCAAAAAGAATACGTAGGGATCGCAGGGAACTGGAAAATATTATATTCAAGCTTTTTGA
AAGACAGCCCAATTGGGCACTAAAGGCGCTGGTGCAAGAAACTGACCAGCCAGAGCAATTCCTGAAGGAGATTCTGAATG
ATCTGTGTTTTTACAACAAACGAGGACCAAACCAGGGAACGCATGAGCTCAAGCCTGAGTACAAGAAATCTACAGGGGAC
ACTGATGCTTCTTGAATATGCTAGTTCATTTAACTGCTTTCGGATAACCAACATACTCAACCTGTTGACTCTGAAGTCAC
GAACATTGAGTTGTGCAGACATCTCATATTTCAGTAACATTCGTTCTGCTGCTAAATGCTAAGAGGCATAGGCGAATAGT
TGTAAGGATAGTTTGATACATTTATTAGAGAAAAGAATAGAAAAGAAAAATCTGGAATCTATGTTCAGGTAAAATAATGT
GCCTGGTGGGAGTCGCAGCGTAGAGCATAGTCCTATTCATAATTTTCGTTGTTTATATGCTGTTTTTATGTCTCATTTCA
TCA

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.53504.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis