Browse Element(s) Details


Os.8642.4.S1_x_at

Description gb:CB628937
DB_XREF= gi:29623926
DB_XREF=OSIIEb04M17.r
CLONE=OSIIEb04M17
TID=Os.8642.4
CNT=29
FEA=FLmRNA
TIER=Stack
STK=6
UG=Os.8642 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) mRNA for nonphototrophic hypocotyl 1a, complete cds
FL= gb:AK066816.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os12g0114011/11Nonphototropic hypocotyl protein 1, putative, expressed
LOC_Os11g0114011/11Nonphototropic hypocotyl protein 1, putative, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os12g01100OsAffx.30760.1.S1_at11/1112+49744..50678hypothetical protein
LOC_Os12g01110OsAffx.30761.1.S1_at11/1112+51050..53138hypothetical protein
LOC_Os12g01110OsAffx.30761.2.S1_s_at11/1112+51050..53138hypothetical protein
LOC_Os12g01120OsAffx.31534.1.S1_at11/1112+63393..64004Homeobox domain containing protein
LOC_Os12g01130OsAffx.7451.1.S1_at11/1112+69546..70241hypothetical protein
LOC_Os12g01140Os.8642.1.S1_a_at11/1112+74285..88965Nonphototropic hypocotyl protein 1, putative, expressed
LOC_Os12g01140Os.8642.4.S1_x_at11/1112+74285..88965Nonphototropic hypocotyl protein 1, putative, expressed
LOC_Os12g01140Os.53644.1.S1_at1/1112+74285..88965Nonphototropic hypocotyl protein 1, putative, expressed
LOC_Os12g01150OsAffx.7452.1.S1_at11/1112+90859..91328hypothetical protein
LOC_Os12g01160Os.7883.1.A1_at6/1112+92091..94423trans-2-enoyl-CoA reductase, mitochondrial precursor, putative
LOC_Os12g01170Os.2616.1.S1_at10/1112+95642..98986tonneau 1b, putative, expressed
LOC_Os12g01180Os.50258.2.S1_a_at11/1112+99803..103005WRKY DNA binding domain containing protein, expressed
LOC_Os12g01180Os.50258.1.S1_at11/1112+99803..103005WRKY DNA binding domain containing protein, expressed
LOC_Os12g01190Os.15622.1.S1_at11/1112+104922..111632RNA recognition motif family protein, expressed
LOC_Os12g01200Os.11572.1.S1_at11/1112+111744..119224leucine-rich repeat family protein, putative, expressed

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Gene Ontology Classification
GO idTypeName
GO:0009637biological_processresponse to blue light
GO:0009638biological_processphototropism
GO:0009902biological_processchloroplast relocation
GO:0009903biological_processchloroplast avoidance movement
GO:0009904biological_processchloroplast accumulation movement
GO:0010118biological_processstomatal movement
GO:0010119biological_processregulation of stomatal movement
GO:0046777biological_processprotein amino acid autophosphorylation
GO:0005737cellular_componentcytoplasm
GO:0009898cellular_componentinternal side of plasma membrane
GO:0016020cellular_componentmembrane
GO:0004674molecular_functionprotein serine/threonine kinase activity
GO:0009882molecular_functionblue light photoreceptor activity
GO:0010181molecular_functionFMN binding
GO:0016301molecular_functionkinase activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.8642.4.S1_x_at--80--7032Chr12:87713..87849 (25 bp)
GTACATTGCGCCTGAGATTATTACA
LOC_Os12g01140
Os.8642.4.S1_x_at--366--972Chr12:87849..87873 (25 bp)
AGGAGCTGGCCATACAAGCGCTGTT
LOC_Os12g01140
Os.8642.4.S1_x_at--634--2672Chr12:87864..87888 (25 bp)
AAGCGCTGTTGATTGGTGGGCTCTA
LOC_Os12g01140
Os.8642.4.S1_x_at--284--7492Chr12:87879..88103 (25 bp)
GTGGGCTCTAGGGATTCTTCTATAT
LOC_Os12g01140
Os.8642.4.S1_x_at--1034--10032Chr12:88193..88279 (25 bp)
TAGTATATCGGTCAGCCTAGCGGCG
LOC_Os12g01140
Os.8642.4.S1_x_at--686--3812Chr12:88314..88338 (25 bp)
CTGCCAACAGGCTAGGGTCCTACGA
LOC_Os12g01140
Os.8642.4.S1_x_at--571--10032Chr12:88378..88402 (25 bp)
TATAAATTGGCCTCTTATACGCGCC
LOC_Os12g01140
Os.8642.4.S1_x_at--483--352Chr12:88580..88604 (25 bp)
ATAACCGCACGGATATGTTCTGAAG
LOC_Os12g01140
Os.8642.4.S1_x_at--246--732Chr12:88594..88618 (25 bp)
ATGTTCTGAAGACCCTGATGATGAT
LOC_Os12g01140
Os.8642.4.S1_x_at--769--2132Chr12:88710..88734 (25 bp)
ACAGACCTTGTTGTGTTTGAACCTA
LOC_Os12g01140
Os.8642.4.S1_x_at--938--6852Chr12:88724..88748 (25 bp)
GTTTGAACCTAGTATGCGATCCATC
LOC_Os12g01140
Target Sequence 
GTACATTGCGCCTGAGATTATTACAGGAGCTGGCCATACAAGCGCTGTTGATTGGTGGGCTCTAGGGATTCTTCTATATG
AAATGTTGTATGGTTATACACCTTTTAGAGGAAAAACGAGGCAACGGACATTTGCTAATATCTTGCACAAGGATATCAGA
TTTCCTGCTAGTATATCGGTCAGCCTAGCGGCGAGGCAGCTAATGTATAGGTTGCTACATAGGGANCCTGCCAACAGGCT
AGGGTCCTACGAGGGAGCCAATGAGATAAAAGGACATCCCTTTTTCCGTGGTATAAATTGGCCTCTTATACGCGCCANGG
CGCCTCCAAAGTTGGANATCCCACTATTTTCCAAGGATGACATGGAGAAGAAGGGACTAGTAACAAATAACCGCACGGAT
ATGTTCTGAAGACCCTGATGATGATCTTCAATAAAAGAGAGGGACATATATTGTTGCTTGCTTTGCGTGNGTAGGCCAAG
ATTAAGATTATGTCATGTAAATATGTAATGTATCGTACAGACCTTGTTGTGTTTGAACCTAGTATGCGATCCATC

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.8642.4.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis