Browse Element(s) Details


Os.53943.1.S1_at

Description gb:AK100961.1
DB_XREF= gi:32986170
TID=Os.53943.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.53943 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:J023141C11, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:J023141C11, full insert sequence.
FL= gb:AK100961.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os01g5047011/11regulator of chromosome condensation, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os01g50430OsAffx.21482.1.S1_at8/111+29279029..29280651hypothetical protein
LOC_Os01g50440Os.20335.1.S1_at11/111+29282530..29283860AWPM-19-like membrane family protein, putative, expressed
LOC_Os01g50450Os.11717.1.S1_a_at11/111+29297479..29301306expressed protein
LOC_Os01g50450Os.11717.2.S1_at11/111+29297479..29301306expressed protein
LOC_Os01g50450Os.11717.1.S1_at11/111+29297479..29301306expressed protein
LOC_Os01g50460Os.2019.1.S1_at11/111+29302412..29304191MtN3/saliva family protein, expressed
LOC_Os01g50460Os.2019.2.S1_x_at11/111+29302412..29304191MtN3/saliva family protein, expressed
LOC_Os01g50470Os.53943.1.S1_at11/111+29304966..29310713regulator of chromosome condensation, putative, expressed
LOC_Os01g50480Os.30572.1.S1_at1/111+29311390..29312863SAM dependent carboxyl methyltransferase family protein
LOC_Os01g50490Os.34136.1.S1_at11/111+29318081..29320130Cytochrome P450 family protein, expressed
LOC_Os01g50500OsAffx.22947.2.S1_x_at10/111+29325758..29330332retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g50500OsAffx.22947.1.S1_x_at9/111+29325758..29330332retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g50500OsAffx.22947.3.S1_x_at5/111+29325758..29330332retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g50500OsAffx.22947.5.S1_x_at4/111+29325758..29330332retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os01g50500OsAffx.22947.5.S1_at2/111+29325758..29330332retrotransposon protein, putative, Ty3-gypsy subclass

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Gene Ontology Classification
GO idTypeName
GO:0006952biological_processdefense response
GO:0003682molecular_functionchromatin binding
GO:0008270molecular_functionzinc ion binding
GO:0008536molecular_functionRan GTPase binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.53943.1.S1_at--28--2651Chr01:29310159..29310183 (25 bp)
AACCAAGAGCGGGTCTTCAAGAAGT
LOC_Os01g50470
Os.53943.1.S1_at--774--2731Chr01:29310177..29310201 (25 bp)
AAGAAGTACAGCCATCCGACTGTTC
LOC_Os01g50470
Os.53943.1.S1_at--10--5991Chr01:29310304..29310328 (25 bp)
GAGACACTGTACAGCGAGTCTTGAC
LOC_Os01g50470
Os.53943.1.S1_at--950--5631Chr01:29310326..29310350 (25 bp)
GACAGGAAATTTCGACTCTCTAATT
LOC_Os01g50470
Os.53943.1.S1_at--453--2011Chr01:29310340..29310364 (25 bp)
ACTCTCTAATTGGTTATTGCTCGGA
LOC_Os01g50470
Os.53943.1.S1_at--913--11Chr01:29310355..29310379 (25 bp)
ATTGCTCGGAGAAAAATACCTGCTT
LOC_Os01g50470
Os.53943.1.S1_at--914--10751Chr01:29310503..29310527 (25 bp)
TTGACTATCTGGGTCGATGTTGCGA
LOC_Os01g50470
Os.53943.1.S1_at--345--8471Chr01:29310554..29310578 (25 bp)
TGGCGGGCGGCAAACTCGGCAATCC
LOC_Os01g50470
Os.53943.1.S1_at--200--191Chr01:29310583..29310607 (25 bp)
ATTTCTTTCACAAATCCCAGGCCAT
LOC_Os01g50470
Os.53943.1.S1_at--205--891Chr01:29310601..29310625 (25 bp)
AGGCCATTTTGTTTCTGTCTTCCAG
LOC_Os01g50470
Os.53943.1.S1_at--1016--4191Chr01:29310633..29310657 (25 bp)
CCCCTGCTGTTTTTCGATCTTTAAT
LOC_Os01g50470
Target Sequence 
AACCAAGAGCGGGTCTTCAAGAAGTACAGCCATCCGACTGTTCCTCAAACAACATCAACGAAAACAGGATCTTCTAACGA
GGAAGAACATCACTCATGATCTTTAATGAGGTTTCTACAAATTGCGGAAGAAGCTTCAAATTGGTGAGACACTGTACAGC
GAGTCTTGACAGGAAATTTCGACTCTCTAATTGGTTATTGCTCGGAGAAAAATACCTGCTTATGTCGAAAGTATAGGATA
ATTTTTATTTAGTGCCAAAACTTAGTTTAGTTACAGACCATATTAAAAGCAAGTCGGAGTTAAGTAACTCTTTTCTAGGT
GAGAAATTAGTAGAGTATTGAGTATTGACTATCTGGGTCGATGTTGCGAAGGGAATGACGGAGGAAGCGGCGCTCTGGCG
GGCGGCAAACTCGGCAATCCCATNATTTCTTTCACAAATCCCAGGCCATTTTGTTTCTGTCTTCCAGTATCGGNCCCCTG
CTGTTTTTCGATCTTTAAT

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.53943.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis