Browse Element(s) Details


Os.53180.1.S1_at

Description gb:AK071227.1
DB_XREF= gi:32981250
TID=Os.53180.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53180 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023088I15, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023088I15, full insert sequence.
FL= gb:AK071227.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g4066011/11retrotransposon protein, putative, unclassified
LOC_Os03g078504/11tRNA methyl transferase family protein, expressed
LOC_Os06g298902/11retrotransposon protein, putative, unclassified
LOC_Os10g032902/11hypothetical protein
LOC_Os04g220501/11Zinc knuckle family protein
LOC_Os12g176501/11hypothetical protein
LOC_Os06g173801/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os08g40630Os.23927.1.S1_at11/118+25586637..25589064mTERF family protein, expressed
LOC_Os08g40640OsAffx.21990.1.S1_at11/118+25590275..25600603retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g40640OsAffx.21991.1.S1_x_at11/118+25590275..25600603retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g40640OsAffx.21991.1.S1_at11/118+25590275..25600603retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g40640OsAffx.21992.1.S1_at11/118+25590275..25600603retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g40640Os.46785.2.S1_x_at5/118+25590275..25600603retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g40640OsAffx.442.1.S1_x_at2/118+25590275..25600603retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g40640OsAffx.442.1.S1_at1/118+25590275..25600603retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g40640OsAffx.30226.2.S1_x_at1/118+25590275..25600603retrotransposon protein, putative, Ty1-copia subclass
LOC_Os08g40650OsAffx.17440.1.S1_at11/118+25602723..25610337Protein kinase domain containing protein
LOC_Os08g40650Os.45902.1.A1_x_at2/118+25602723..25610337Protein kinase domain containing protein
LOC_Os08g40650OsAffx.22442.1.S1_x_at1/118+25602723..25610337Protein kinase domain containing protein
LOC_Os08g40650OsAffx.727.1.S1_x_at1/118+25602723..25610337Protein kinase domain containing protein
LOC_Os08g40660Os.53180.1.S1_at11/118+25612597..25617531retrotransposon protein, putative, unclassified
LOC_Os08g40660Os.46012.2.S1_x_at7/118+25612597..25617531retrotransposon protein, putative, unclassified
LOC_Os08g40660Os.46012.3.S1_x_at6/118+25612597..25617531retrotransposon protein, putative, unclassified
LOC_Os08g40660Os.27088.1.A1_x_at4/118+25612597..25617531retrotransposon protein, putative, unclassified
LOC_Os08g40670NANA8+25619077..25620483Zinc knuckle family protein
LOC_Os08g40680Os.4867.1.S1_at11/118+25626018..25627092Xylanase inhibitor protein 2 precursor, putative, expressed
LOC_Os08g40680OsAffx.17441.1.S1_at2/118+25626018..25627092Xylanase inhibitor protein 2 precursor, putative, expressed
LOC_Os08g40690Os.4681.1.S1_at11/118+25629614..25630980Xylanase inhibitor protein 1 precursor, putative, expressed
LOC_Os08g40700OsAffx.17442.1.S1_at11/118+25632130..25633661expressed protein
LOC_Os08g40710Os.49985.1.S1_at11/118+25634719..25636039retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os08g40720Os.51655.1.S1_at11/118+25636971..25638706FAD-binding domain-containing protein, putative, expressed
LOC_Os08g40720Os.51655.2.S1_x_at11/118+25636971..25638706FAD-binding domain-containing protein, putative, expressed
LOC_Os08g40730OsAffx.6096.1.S1_at11/118+25640800..25641639hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0006396biological_processRNA processing
GO:0004808molecular_functiontRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity
GO:0019825molecular_functionoxygen binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53180.1.S1_at--318--2238Chr11:4068853..4068877 (25 bp)
ACAAGGCCAGGTCACTATACTATTA
NONE
Os.53180.1.S1_at--583--651Chr08:25617442..25617466 (25 bp)
ATGCACCGTTGCTGGGCACCGACAA
LOC_Os08g40660
Os.53180.1.S1_at--249--21112Chr12:10105080..10105104 (25 bp)
ACATGACTGGGCACCGACGAGGCAA
LOC_Os12g17650
Os.53180.1.S1_at--448--9291Chr08:25617267..25617291 (25 bp)
TCCGTTCCACATTCACTGTATTCAA
LOC_Os08g40660
Os.53180.1.S1_at--198--2097Chr11:4069197..4069220 (24 bp)
ACATAGGCTCGTCCTGTGGATGTAA
NONE
Os.53180.1.S1_at--343--87311Chr10:1375331..1375354 (24 bp)
TGTAATTAACCGGTAGCCTCATTGT
LOC_Os10g03290
Os.53180.1.S1_at--403--9591Chr08:25617119..25617143 (25 bp)
TCATTGTTAGGCGTCGGGAATCAAC
LOC_Os08g40660
Os.53180.1.S1_at--319--8213Chr07:7664566..7664590 (25 bp)
GGAATCAACGGACTGCACGCAATCT
NONE
Os.53180.1.S1_at--112--3056Chr11:4069270..4069294 (25 bp)
AATCTCCAGTCAGCATACCTTTTCA
NONE
Os.53180.1.S1_at--300--10553Chr08:25617062..25617086 (25 bp)
TTCATTAAGCATTCCTCACGAAGGC
LOC_Os08g40660
Os.53180.1.S1_at--544--5472Chr11:23781467..23781491 (25 bp)
GAACTCCTGCGGGAGCTCTCATGTA
NONE
Target Sequence 
ACAAGGCCAGGTCACTATACTATTAACACGTCTAAAACGGACGGGAACCGGATGCACCGTTGCTGGGCACCGACAAGGCA
AAAGCAACAATAAAATCCATGTTTGATGAAGGCCGGGGTACATGACTGGGCACCGACGAGGCAAAGGTCACCCGCTTCAC
CAAATTCTCTCCGCACTCCGACGTGGTGGTAGTGTACTGTGACCGGGTTTTGGTGAAACAAAGCCATCCGTTCCACATTC
ACTGTATTCAACATTAAATCTGCACCAACCTCAACCTTCGGCGAGCAAACAACTTTGAAGACGACGATCATAAAGCGCAG
CTTAATCGGAGGTATTACATAGGCTCGTCCTGTGGATGTAATTAACCGGTAGCCTCATTGTTAGGCGTCGGGAATCAACG
GACTGCACGCAATCTCCAGTCAGCATACCTTTTCATTAAGCATTCCTCACGAAGGCAAAAGGCGAACTCCTGCGGGAGCT
CTCATGTA

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.53180.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis