Browse Element(s) Details


Os.53940.1.S1_at

Description gb:AK110987.1
DB_XREF= gi:32996196
TID=Os.53940.1
CNT=3
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53940 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-174-D06, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-174-D06, full insert sequence.
FL= gb:AK100952.1 gb:AK110987.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g4032011/11pentatricopeptide, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os05g40290Os.8667.1.S1_at11/115+23589542..23594088KH domain-containing protein, putative, expressed
LOC_Os05g40300NANA5+23602655..23602976expressed protein
LOC_Os05g40310OsAffx.4573.1.S1_at11/115+23605464..23607764expressed protein
LOC_Os05g40320Os.53940.1.S1_at11/115+23609733..23614179pentatricopeptide, putative, expressed
LOC_Os05g40320Os.53940.1.S2_at10/115+23609733..23614179pentatricopeptide, putative, expressed
LOC_Os05g40320OsAffx.14143.1.S1_at1/115+23609733..23614179pentatricopeptide, putative, expressed
LOC_Os05g40330Os.50012.1.S1_at11/115+23614535..23617464auxin efflux carrier family protein, putative, expressed
LOC_Os05g40340OsAffx.15037.1.S1_at10/115+23621899..23622617hypothetical protein
LOC_Os05g40350OsAffx.27257.1.S1_at11/115+23624347..23624876hypothetical protein
LOC_Os05g40360OsAffx.27258.1.S1_at11/115+23626304..23627186hypothetical protein
LOC_Os05g40370NANA5+23638300..23640886hypothetical protein

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53940.1.S1_at--499--10491Chr05:23611284..23611308 (25 bp)
TTCAATTTATGTCTACCGGGCCCTA
LOC_Os05g40320
Os.53940.1.S1_at--192--9971Chr05:23611297..23611321 (25 bp)
TACCGGGCCCTAATCAGTGACTTAA
LOC_Os05g40320
Os.53940.1.S1_at--515--8351Chr05:23611326..23611350 (25 bp)
GGCTGGACAGTTTGAACTTGCACAA
LOC_Os05g40320
Os.53940.1.S1_at--368--2851Chr05:23611374..23611398 (25 bp)
AAGTGCTTCAGAATTACTAGGCCCT
LOC_Os05g40320
Os.53940.1.S1_at--100--1971Chr05:23611454..23611478 (25 bp)
ACTGTCAATGATCTTCCAGGTGTGA
LOC_Os05g40320
Os.53940.1.S1_at--1046--8991Chr05:23611476..23611500 (25 bp)
TGAATATTTCGTTTGCATGTGCCTT
LOC_Os05g40320
Os.53940.1.S1_at--430--6211Chr05:23611685..23611709 (25 bp)
GAGGCTTTTGCTGATGTGCATTTGA
LOC_Os05g40320
Os.53940.1.S1_at--927--3311Chr05:23611723..23611747 (25 bp)
CACTTCTCTCATTTATATCTTCACG
LOC_Os05g40320
Os.53940.1.S1_at--1150--5971Chr05:23611766..23611790 (25 bp)
GAGACAGGTCCTTTGCTTATGAGAC
LOC_Os05g40320
Os.53940.1.S1_at--256--4891Chr05:23611780..23611804 (25 bp)
GCTTATGAGACCTGAACTGTTTATC
LOC_Os05g40320
Os.53940.1.S1_at--1029--471Chr05:23611802..23611826 (25 bp)
ATCTGAGATTGTTCCACCATAGCGC
LOC_Os05g40320
Target Sequence 
TTCAATTTATGTCTACCGGGCCCTAATCAGTGACTTAAAGAAGGCTGGACAGTTTGAACTTGCACAAAAGTTATCTGAAG
AGATGAAAACAAGTGCTTCAGAATTACTAGGCCCTGAAGATTTTAAACATAAGTTCAAGGGTAGAAAGATCAACAAGAAC
AAGTAAGAAAACTGTCAATGATCTTCCAGGTGTGAATATTTCGTTTGCATGTGCCTTGTGCTCATCCACTGTTTCAGCCA
AAGATTCTGGGATAAGTTGAAATTTTTCAGGGAATGTATCTCATTAACAATGAGATAATCACATGGGCTTACAAAAGAGT
GATGATTACTAACAGATACAATGATATCAGGCCGAGAGAACCAGAATATAAATCATAAACCTCTTTGAAATATCATGGTT
GGAGGCTTTTGCTGATGTGCATTTGAAGAGACAGGAACACACTTCTCTCATTTATATCTTCACGGATGCAAGAGATTATC
TAGAGACAGGTCCTTTGCTTATGAGACCTGAACTGTTTATCTGAGATTGTTCCACCATAGCGC

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.53940.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis