Browse Element(s) Details


Os.53940.1.S2_at

Description gb:AK100952.1
DB_XREF= gi:32986161
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:J023139M01, full insert sequence.
FL= gb:AK100952.1 gb:AK110987.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os05g4032010/11pentatricopeptide, 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.S2_at--321--911Chr05:23612498..23612522 (25 bp)
AGGCTTTTGTCGGTGTAGCACTTCT
LOC_Os05g40320
Os.53940.1.S2_at--744--2051NONE
ACTTCTTCTGTCTGTTTCCACATTA
NONE
Os.53940.1.S2_at--1142--10031Chr05:23613509..23613533 (25 bp)
TAGATGAGCTCACCTCTGAAGTCAG
LOC_Os05g40320
Os.53940.1.S2_at--1038--3831Chr05:23613524..23613548 (25 bp)
CTGAAGTCAGCATGCTCAATCTTGA
LOC_Os05g40320
Os.53940.1.S2_at--94--9371Chr05:23613570..23613594 (25 bp)
TCGACTGGTCGCTATATCTGGCATA
LOC_Os05g40320
Os.53940.1.S2_at--1093--5651Chr05:23613771..23613795 (25 bp)
GACATGACAAAGCTCGCTTACCACT
LOC_Os05g40320
Os.53940.1.S2_at--33--2651Chr05:23613928..23613952 (25 bp)
AACCATGGACATGACGTGTGCCTGA
LOC_Os05g40320
Os.53940.1.S2_at--1104--5751Chr05:23613940..23613964 (25 bp)
GACGTGTGCCTGAATGCAGCGCCAG
LOC_Os05g40320
Os.53940.1.S2_at--86--6671Chr05:23613983..23614007 (25 bp)
GTTGCAAACATGCTTCCACAATTTT
LOC_Os05g40320
Os.53940.1.S2_at--797--4951Chr05:23614028..23614052 (25 bp)
GCATACGGAGTATAAGCCTTCATTT
LOC_Os05g40320
Os.53940.1.S2_at--333--3551Chr05:23614082..23614106 (25 bp)
CATCTCACCCTTTTACTTACTGATA
LOC_Os05g40320
Target Sequence 
AGGCTTTTGTCGGTGTAGCACTTCTTCTGTCTGTTTCCACATTAGAGATACCTAGCTTTAGATGAGCTCACCTCTGAAGT
CAGCATGCTCAATCTTGAGCGTGCTAGGCAAATAAAGAGTCGACTGGTCGCTATATCTGGCATAGTTCACAAGGTCAGGG
ATGAACTACAGTGCTAGCTAGATGACGACATCGACATGACAAAGCTCGCTTACCACTCAGCTGGCTGCCAGTCATCAAGA
TTTGACATCGAGAAAGAAGCAAGCGAGCTCGAAGATAGTAATAGGTATACTCCTACAAGACAAAAAAAAAAAAAAATCTT
CCACAAGTTGATAAGTTGGTGCTTCATCCAACCATGGACATGACGTGTGCCTGAATGCAGCGCCAGGGAGGACGATGTTG
ATAAGTTGCAAACATGCTTCCACAATTTTCATGTTTTCTTGGGATGATAGCATACGGAGTATAAGCCTTCATTTTATATC
TTTACCTACAATATTCAGTCAAGCATCTCACCCTTTTACTTACTGATA

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.S2_at     

Putative homologies in rice

Putative homologies in arabidopsis