Browse Element(s) Details


Os.49985.1.S1_at

Description gb:AK119486.1
DB_XREF= gi:37989109
TID=Os.49985.1
CNT=1
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.49985 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-134-C06, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-134-C06, full insert sequence.
FL= gb:AK119486.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os08g4071011/11retrotransposon protein, putative, Ty1-copia subclass, expressed
LOC_Os12g241602/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os03g501801/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os12g147501/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os09g202501/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os07g295201/11retrotransposon protein, putative, Ty1-copia subclass
LOC_Os06g477301/11retrotransposon protein, putative, Ty1-copia subclass
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
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
LOC_Os08g40740Os.9347.1.S1_at1/118+25645613..25646518Glycosyl hydrolases family 18 protein
LOC_Os08g40750OsAffx.29612.1.S1_at11/118+25648342..25652648hypothetical protein
LOC_Os08g40750Os.25139.1.A1_at5/118+25648342..25652648hypothetical protein
LOC_Os08g40750OsAffx.828.1.S1_x_at1/118+25648342..25652648hypothetical protein
LOC_Os08g40760Os.27691.2.S1_x_at2/118+25655075..25656004retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g40760Os.27691.1.S1_x_at1/118+25655075..25656004retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os08g40770Os.27691.1.S1_x_at4/118+25656258..25659518retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
NONENONENONE
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.49985.1.S1_at--151--3071Chr08:25635233..25635257 (25 bp)
AATCTAGTTTCTGTTCATCGTCTTG
LOC_Os08g40710
Os.49985.1.S1_at--570--6656Chr09:12133270..12133398 (25 bp)
GTTGATGATAACTCTGCTTTCCTTG
LOC_Os09g20250
Os.49985.1.S1_at--180--3631Chr08:25635193..25635217 (25 bp)
CTTTCCTTGAACTCCATCGTGATTA
LOC_Os08g40710
Os.49985.1.S1_at--344--10291Chr08:25635166..25635190 (25 bp)
TTTCTCTTAAGGATCGGGTCACCAG
LOC_Os08g40710
Os.49985.1.S1_at--921--9233Chr03:28569984..28570005 (22 bp)
TCCTTGAAGCAAGCCTGCAGTGTTG
LOC_Os03g50180
Os.49985.1.S1_at--1003--3451Chr08:25635069..25635093 (25 bp)
CAGTGTTGAAAAGCTCTCCTTGGCC
LOC_Os08g40710
Os.49985.1.S1_at--570--2251Chr08:25634987..25635011 (25 bp)
AAATTTCATCTTCCTTGTTCGAGTT
LOC_Os08g40710
Os.49985.1.S1_at--154--6111Chr08:25634954..25634978 (25 bp)
GAGTCGGTTTGTAATGCTTGTCATC
LOC_Os08g40710
Os.49985.1.S1_at--103--1171Chr08:25634921..25634945 (25 bp)
AGTCATCAGTTACCCTTTCCTATTT
LOC_Os08g40710
Os.49985.1.S1_at--1113--10291Chr08:25634887..25634911 (25 bp)
TTTCTAGGCATCCTTTGGAACTCAT
LOC_Os08g40710
Os.49985.1.S1_at--154--7071Chr08:25634784..25634808 (25 bp)
GTAAGTTCACTTGGATTTATCTCAT
LOC_Os08g40710
Target Sequence 
AATCTAGTTTCTGTTCATCGTCTTGTTGATGATAACTCTGCTTTCCTTGAACTCCATCGTGATTATTTTTCTCTTAAGGA
TCGGGTCACCAGGAAAACACTCCTTAAAGGAAGATCATGGCGCAGGCTCTATCCCCTTCCAAAATCATCCTTGAAGCAAG
CCTGCAGTGTTGAAAAGCTCTCCTTGGCCCGGTGGCACAGTCATTTTGCTCATCCCTCATCTTCCATCGTCAAGCAAGTA
GACAATAAATTTCATCTTCCTTGTTCGAGTTTAGCAAGTGAGTCGGTTTGTAATGCTTGTCATCAAGCAAAGAGTCATCA
GTTACCCTTTCCTATTTCCACTAGTGTTTCTAGGCATCCTTTGGAACTCATATTTCCTGATGTTTGGGGTCCTGCTCCTG
AGTCTGTAGGAAGAAAAAAAATACTATGTGAGTTTTATTGATGATTTTAGTAAGTTCACTTGGATTTATCTCAT

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.49985.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis