Browse Element(s) Details


Os.53979.1.S1_at

Description gb:AK101122.1
DB_XREF= gi:32986331
TID=Os.53979.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53979 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J033025J07, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J033025J07, full insert sequence.
FL= gb:AK101122.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os11g2055411/11Helicase associated domain family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os11g20510OsAffx.22699.1.S1_x_at2/1111+11858988..11865206retrotransposon protein, putative, unclassified
LOC_Os11g20510OsAffx.18275.1.S1_x_at1/1111+11858988..11865206retrotransposon protein, putative, unclassified
LOC_Os11g20520NANA11+11868983..11871953retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os11g20530OsAffx.18961.1.S1_at11/1111+11882167..11883147hypothetical protein
LOC_Os11g20542NANA11+11884647..11885141NA
LOC_Os11g20554Os.53979.1.S1_at11/1111+11886437..11902402Helicase associated domain family protein, expressed
LOC_Os11g20570Os.26886.6.S1_s_at10/1111+11905723..11908817transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g20570Os.26886.2.S1_s_at7/1111+11905723..11908817transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g20570OsAffx.16467.1.S1_at7/1111+11905723..11908817transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g20570OsAffx.3425.1.S1_at1/1111+11905723..11908817transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g20580OsAffx.31076.1.S1_x_at10/1111+11909418..11910874hypothetical protein
LOC_Os11g20580OsAffx.31076.1.S1_at10/1111+11909418..11910874hypothetical protein
LOC_Os11g20580OsAffx.26148.1.S1_at6/1111+11909418..11910874hypothetical protein
LOC_Os11g20580OsAffx.26148.1.S1_x_at5/1111+11909418..11910874hypothetical protein
LOC_Os11g20590Os.26886.3.S1_x_at6/1111+11911769..11915073transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g20590Os.26886.1.S1_x_at6/1111+11911769..11915073transposon protein, putative, CACTA, En/Spm sub-class
LOC_Os11g20600OsAffx.31077.1.S1_at10/1111+11916239..11917028hypothetical protein
LOC_Os11g20600Os.51672.2.S1_at1/1111+11916239..11917028hypothetical protein
LOC_Os11g20610Os.52609.1.S1_at1/1111+11924285..11928849retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
GO:0005739cellular_componentmitochondrion
GO:0003723molecular_functionRNA binding
GO:0003724molecular_functionRNA helicase activity
GO:0004004molecular_functionATP-dependent RNA helicase activity
GO:0005524molecular_functionATP binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53979.1.S1_at--861--7771Chr11:11901721..11901745 (25 bp)
GGTGCATCCATTTTCCGTACTGGAA
LOC_Os11g20554
Os.53979.1.S1_at--183--10671Chr11:11901733..11901757 (25 bp)
TTCCGTACTGGAAGGTGATGAATAC
LOC_Os11g20554
Os.53979.1.S1_at--1032--6211Chr11:11901749..11901773 (25 bp)
GATGAATACGGGAAACTGCCGGTAT
LOC_Os11g20554
Os.53979.1.S1_at--220--5551Chr11:11901760..11901784 (25 bp)
GAAACTGCCGGTATATGTTGTCTAC
LOC_Os11g20554
Os.53979.1.S1_at--810--6631Chr11:11901776..11901800 (25 bp)
GTTGTCTACCATGAGTTAATAAATA
LOC_Os11g20554
Os.53979.1.S1_at--247--3071Chr11:11901793..11901817 (25 bp)
AATAAATACTACTCGTCCTTTCATG
LOC_Os11g20554
Os.53979.1.S1_at--372--2011Chr11:11901800..11901824 (25 bp)
ACTACTCGTCCTTTCATGAGAAATG
LOC_Os11g20554
Os.53979.1.S1_at--521--691Chr11:11901815..11901839 (25 bp)
ATGAGAAATGTTAGTGCCGTGGATC
LOC_Os11g20554
Os.53979.1.S1_at--716--7271Chr11:11901828..11901852 (25 bp)
GTGCCGTGGATCAGTCTTGGGTTAA
LOC_Os11g20554
Os.53979.1.S1_at--1042--8551Chr11:11901834..11901858 (25 bp)
TGGATCAGTCTTGGGTTAAACCTAT
LOC_Os11g20554
Os.53979.1.S1_at--300--2711Chr11:11901866..11901890 (25 bp)
AAGCTTGAAAGATTGGACATGAACA
LOC_Os11g20554
Target Sequence 
GGTGCATCCATTTTCCGTACTGGAAGGTGATGAATACGGGAAACTGCCGGTATATGTTGTCTACCATGAGTTAATAAATA
CTACTCGTCCTTTCATGAGAAATGTTAGTGCCGTGGATCAGTCTTGGGTTAAACCTATATTGAAGAAGCTTGAAAGATTG
GACATGAACA

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.53979.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis