Browse Element(s) Details


Os.55422.1.S1_at

Description gb:AK108060.1
DB_XREF= gi:32993269
TID=Os.55422.1
CNT=3
FEA=FLmRNA
TIER=FL
STK=1
UG=Os.55422 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:002-138-B01, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:002-138-B01, full insert sequence.
FL= gb:AK108060.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os06g1268011/11Zinc finger, C3HC4 type family protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os06g12640OsAffx.27586.1.S1_at11/116+6896997..6900337expressed protein
LOC_Os06g12650OsAffx.4816.1.S1_at11/116+6906712..6909524hypothetical protein
LOC_Os06g12660Os.51586.1.S1_at8/116+6914784..6915583expressed protein
LOC_Os06g12660OsAffx.15392.1.S1_at1/116+6914784..6915583expressed protein
LOC_Os06g12660Os.4657.1.S1_at1/116+6914784..6915583expressed protein
LOC_Os06g12669NANA6+6920622..6921359NA
LOC_Os06g12680Os.55422.1.S1_at11/116+6922216..6923998Zinc finger, C3HC4 type family protein, expressed
LOC_Os06g12690Os.9510.1.S1_s_at11/116+6927366..6931491DCN1-like protein 2, putative, expressed
LOC_Os06g12700OsAffx.15394.1.S1_at11/116+6936046..6936369hypothetical protein
LOC_Os06g12710NANA6+6937496..6943387retrotransposon protein, putative, Ty3-gypsy subclass
LOC_Os06g12720Os.50255.1.S1_at3/116+6944034..6946819retrotransposon protein, putative, unclassified
LOC_Os06g12720Os.46995.1.S1_x_at1/116+6944034..6946819retrotransposon protein, putative, unclassified

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Gene Ontology Classification
GO idTypeName
GO:0001666biological_processresponse to hypoxia
GO:0005515molecular_functionprotein binding
GO:0008270molecular_functionzinc ion binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.55422.1.S1_at--1045--3231Chr06:6922825..6922849 (25 bp)
CAAGAATGTCGGGACCCAGGGCGCT
LOC_Os06g12680
Os.55422.1.S1_at--716--3031Chr06:6922779..6922803 (25 bp)
AATGCCAATGGTGCTGTCTTGAGGA
LOC_Os06g12680
Os.55422.1.S1_at--974--9971Chr06:6922692..6922716 (25 bp)
TACCAGTATGTTCTAGGGACCTCAG
LOC_Os06g12680
Os.55422.1.S1_at--437--9651Chr06:6922671..6922695 (25 bp)
TCAGAGCTCAGGGTGTCTCTCCAGC
LOC_Os06g12680
Os.55422.1.S1_at--81--9491Chr06:6922656..6922680 (25 bp)
TCTCTCCAGCCAGACCGAATTAGAA
LOC_Os06g12680
Os.55422.1.S1_at--1142--8211Chr06:6922609..6922633 (25 bp)
GGCAAGGCCGACAGGGTTAAGCTCT
LOC_Os06g12680
Os.55422.1.S1_at--280--5171Chr06:6922487..6922511 (25 bp)
GCAAGCTACCTACTGGCTCAGATGA
LOC_Os06g12680
Os.55422.1.S1_at--686--2711Chr06:6922454..6922478 (25 bp)
AAGCAGGGAGCCTTCCATGGATGAA
LOC_Os06g12680
Os.55422.1.S1_at--1099--9751Chr06:6922370..6922394 (25 bp)
TAATCTTTTCTCTTGTTGGTGCTGC
LOC_Os06g12680
Os.55422.1.S1_at--663--10851Chr06:6922355..6922379 (25 bp)
TTGGTGCTGCTCACTTAATCTCTTA
LOC_Os06g12680
Os.55422.1.S1_at--1069--2871Chr06:6922276..6922296 (21 bp)
AAGGGCATTAATCCCATGGAGCGAT
LOC_Os06g12680
Target Sequence 
CAAGAATGTCGGGACCCAGGGCGCTGTCGAAGGCGGTGGCATCGGCAATGCCAATGGTGCTGTCTTGAGGAGAGAGGAAG
GGGAGAGCAGCAGCAGCAGCTTGGATGCAAGGAGATGCTTCTCAATGGGGACTTACCAGTATGTTCTAGGGACCTCAGAG
CTCAGGGTGTCTCTCCAGCCAGACCGAATTAGAAATGGCGGCGGCGGTGTGACGAGGGCAAGGCCGACAGGGTTAAGCTC
TGTCAATGCTGAGATCATGGAGGGGAAGAAGATATGCGCACGGAACAAAGGGGAGAGCTTCTCTGTGTCGAAGATTTGGC
AGTGGTCTAATCTGAAGGGCAAGCTACCTACTGGCTCAGATGAATGTTCGGAAGCAGGGAGCCTTCCATGGATGAAGAGA
GGTGGCATTGGGGATACATCAAATATGTGACTGTAGTCTGTATTATGATAGTGGCTAATCTTTTCTCTTGTTGGTGCTGC
TCACTTAATCTCTTACCTATAGTTATCTTGACTTTTTTCAGTCTGATTGCTTAGTGCTGAGTTTGATTGAAGGGCATTAA
TCCCATGGAGCGAT

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.55422.1.S1_at     

Putative homologies in rice

Putative homologies in arabidopsis