Browse Element(s) Details


Os.38340.1.S1_at

Description gb:AK100250.1
DB_XREF= gi:32985459
TID=Os.38340.1
CNT=11
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.38340 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023060H19, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023060H19, full insert sequence.
FL= gb:AK100250.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g5599011/11Homeobox domain containing protein, expressed
LOC_Os10g056809/11expressed protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g55920OsAffx.13499.1.S1_at11/113+31779680..31783343hypothetical protein
LOC_Os03g55930Os.4177.1.S1_at10/113+31784349..3178617930S ribosomal protein S9, chloroplast precursor, putative, expressed
LOC_Os03g55940OsAffx.3620.1.S1_at11/113+31788253..31788867hypothetical protein
LOC_Os03g55950Os.15251.1.S1_at9/113+31792873..31796791f13j11 PRLI-interacting factor G, putative, expressed
LOC_Os03g55960Os.9049.1.S1_at10/113+31797473..31798395EF hand family protein, expressed
LOC_Os03g55970Os.17075.1.S1_at11/113+31799392..31802303ResB-like family protein, expressed
LOC_Os03g55970Os.9781.1.S1_x_at1/113+31799392..31802303ResB-like family protein, expressed
LOC_Os03g55970Os.57396.1.S1_at1/113+31799392..31802303ResB-like family protein, expressed
LOC_Os03g55970Os.9781.1.S1_at1/113+31799392..31802303ResB-like family protein, expressed
LOC_Os03g55980Os.11256.1.S1_at11/113+31806155..31806828expressed protein
LOC_Os03g55990Os.38340.1.S1_at11/113+31808092..31810462Homeobox domain containing protein, expressed
LOC_Os03g55990Os.39943.1.S1_s_at11/113+31808092..31810462Homeobox domain containing protein, expressed
LOC_Os03g55990Os.39943.2.A1_x_at10/113+31808092..31810462Homeobox domain containing protein, expressed
LOC_Os03g55990Os.39943.2.A1_at8/113+31808092..31810462Homeobox domain containing protein, expressed
LOC_Os03g55990Os.39943.1.S1_x_at5/113+31808092..31810462Homeobox domain containing protein, expressed
LOC_Os03g56000Os.26557.1.A1_at11/113+31814055..31817328hypothetical protein
LOC_Os03g56010OsAffx.25727.1.S1_at11/113+31824100..31824555bZIP transcription factor family protein
LOC_Os03g56020Os.55771.1.S1_at11/113+31827304..31835347RNA recognition motif family protein, expressed
LOC_Os03g56020OsAffx.13500.1.S1_at11/113+31827304..31835347RNA recognition motif family protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0006355biological_processregulation of transcription, DNA-dependent
GO:0008284biological_processpositive regulation of cell proliferation
GO:0009733biological_processresponse to auxin stimulus
GO:0009855biological_processdetermination of bilateral symmetry
GO:0009887biological_processorgan morphogenesis
GO:0009943biological_processadaxial/abaxial axis specification
GO:0009944biological_processpolarity specification of adaxial/abaxial axis
GO:0009955biological_processadaxial/abaxial pattern formation
GO:0009956biological_processradial pattern formation
GO:0009965biological_processleaf morphogenesis
GO:0010014biological_processmeristem initiation
GO:0010051biological_processvascular tissue pattern formation (sensu Tracheophyta)
GO:0010072biological_processprimary shoot apical meristem specification
GO:0010073biological_processmeristem maintenance
GO:0010075biological_processregulation of meristem size
GO:0010087biological_processvascular tissue development (sensu Tracheophyta)
GO:0010089biological_processxylem histogenesis
GO:0030154biological_processcell differentiation
GO:0045597biological_processpositive regulation of cell differentiation
GO:0005634cellular_componentnucleus
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
GO:0005515molecular_functionprotein binding
GO:0008289molecular_functionlipid binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.38340.1.S1_at--1020--2412Chr10:2829033..2829057 (25 bp)
AAAACTTCTATGAGTTCTGCCTAAA
LOC_Os10g05680
Os.38340.1.S1_at--1126--6052Chr10:2829044..2829068 (25 bp)
GAGTTCTGCCTAAATGATTGTTATC
LOC_Os10g05680
Os.38340.1.S1_at--113--6612Chr05:3379350..3379374 (25 bp)
GATTGTTATCCATGGTGTGCCTAAA
NONE
Os.38340.1.S1_at--313--7753Chr10:2829073..2829096 (24 bp)
GGTGTGCCTAAATAATTGTTCGATC
LOC_Os10g05680
Os.38340.1.S1_at--259--3173Chr10:2829085..2829109 (25 bp)
AATTGTTCGATCTAGAGGTGATCCA
LOC_Os10g05680
Os.38340.1.S1_at--313--6152Chr10:2829099..2829123 (25 bp)
GAGGTGATCCAAAGATTCGTCTATA
LOC_Os10g05680
Os.38340.1.S1_at--382--5772Chr10:2829127..2829151 (25 bp)
GACGTAACAATAATGCAGTGTTTTT
LOC_Os10g05680
Os.38340.1.S1_at--905--10352Chr10:2829453..2829476 (24 bp)
TTTTTGTTTCTTTGCTATCTGAAAG
LOC_Os10g05680
Os.38340.1.S1_at--1047--1072Chr10:2829506..2829530 (25 bp)
AGTGGAAGGAGCTCATTGGTGTACC
LOC_Os10g05680
Os.38340.1.S1_at--576--12Chr10:2829520..2829544 (25 bp)
ATTGGTGTACCTTTGTTGAAATGGC
LOC_Os10g05680
Os.38340.1.S1_at--897--10751Chr03:31810342..31810366 (25 bp)
TTGAAATGGCTCCTTTGCATCCTCA
LOC_Os03g55990
Target Sequence 
AAAACTTCTATGAGTTCTGCCTAAATGATTGTTATCCATGGTGTGCCTAAATAATTGTTCGATCTAGAGGTGATCCAAAG
ATTCGTCTATATTAGACGTAACAATAATGCAGTGTTTTTTTTGTTTATTTTTTAGCCTACAAATGTNNNACAAGAAGAGG
ATGAAAGAGTGACANTAGGCGAGCTCTGTAGCATATATAGAATGTTNGCTATCCACNGGNACATCTTTAACCCGAGCCTA
CCTACTGTATAGATGTGTTTAGTACGTGCTTACTATGCTTAATTTTGGGGATAATATAGTACGACGTGTAAGAAAATTCA
GAACTATGTTGTATGCTCTAGCTGAATTTGTTTACTTCCTACAAAAAAATGGATGAACTACTGATCCAGTTCATGTTGTG
ATCCTCCTCCAAGGAGTTTTTTTTTGTTTCTTTGCTATCTGAAAGATTCCTTTTTTTTTTTTNNGCTTTGTTGAAGTGGA
AGGAGCTCATTGGTGTACCTTTGTTGAAATGGCTCCTTTGCATCCTCA

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.38340.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis