Browse Element(s) Details


Os.39942.1.S1_x_at

Description gb:CF330480
DB_XREF= gi:33809192
DB_XREF=NACL--06-D10.g1
CLONE=NACL--06-D10
TID=Os.39942.1
CNT=3
FEA=EST
TIER=ConsEnd
STK=0
UG=Os.39942 (NCBI UniGene Cluster)
UG_TITLE=Transcribed sequences
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os04g206308/11hypothetical protein
LOC_Os09g124801/11hypothetical protein
LOC_Os05g142901/11hypothetical protein
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os04g20600OsAffx.3839.1.S1_at11/114+11498791..11499543hypothetical protein
LOC_Os04g20610NANA4+11509474..11511740Zinc knuckle family protein
LOC_Os04g20620OsAffx.19542.3.S1_x_at7/114+11513697..11519353retrotransposon protein, putative, Ty1-copia subclass
LOC_Os04g20620OsAffx.21754.1.S1_x_at1/114+11513697..11519353retrotransposon protein, putative, Ty1-copia subclass
LOC_Os04g20620OsAffx.9949.1.S1_at1/114+11513697..11519353retrotransposon protein, putative, Ty1-copia subclass
LOC_Os04g20630Os.39942.1.S1_x_at8/114+11520117..11523264hypothetical protein
LOC_Os04g20630Os.39942.2.S1_a_at7/114+11520117..11523264hypothetical protein
LOC_Os04g20630Os.39942.2.S1_x_at3/114+11520117..11523264hypothetical protein
LOC_Os04g20640Os.54774.1.S1_x_at2/114+11526822..11533311retrotransposon, putative, centromere-specific
LOC_Os04g20640Os.54774.1.S1_at2/114+11526822..11533311retrotransposon, putative, centromere-specific
LOC_Os04g20640Os.52447.1.S1_x_at1/114+11526822..11533311retrotransposon, putative, centromere-specific
LOC_Os04g20650OsAffx.13893.1.S1_at11/114+11537502..11537927hypothetical protein
LOC_Os04g20670OsAffx.26082.2.S1_at9/114+11540992..11542376hypothetical protein
LOC_Os04g20670OsAffx.26082.1.S1_x_at2/114+11540992..11542376hypothetical protein
LOC_Os04g20670OsAffx.26082.1.S1_at2/114+11540992..11542376hypothetical protein
LOC_Os04g20670OsAffx.22441.1.S1_at1/114+11540992..11542376hypothetical protein
LOC_Os04g20680Os.26878.1.S1_at11/114+11544611..11549917Calcium binding EGF domain containing protein, expressed

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Gene Ontology Classification
GO idTypeName
GO:0005515molecular_functionprotein binding
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.39942.1.S1_x_at--739--10831Chr04:11523320..11523344 (25 bp)
TTGGGACCCGACACTGAAGATGTGG
NONE
Os.39942.1.S1_x_at--1145--2271Chr04:11523290..11523314 (25 bp)
AAAGTTACTACTATGGCAAGACGGT
NONE
Os.39942.1.S1_x_at--542--108110Chr08:12585823..12585856 (25 bp)
TTGTCATGATGGACCGTGCGAGGCC
NONE
Os.39942.1.S1_x_at--103--4851Chr04:11523127..11523151 (25 bp)
GCTACAAGTAATCGCATCAATCATT
LOC_Os04g20630
Os.39942.1.S1_x_at--1093--7831Chr04:11523082..11523106 (25 bp)
GGTTTTGGCATTGGTATCCCTTAAG
LOC_Os04g20630
Os.39942.1.S1_x_at--706--5291Chr04:11523036..11523060 (25 bp)
GAAGGCATTCCTGTTGACATAATTA
LOC_Os04g20630
Os.39942.1.S1_x_at--13--6673Chr07:6785222..6785295 (25 bp)
GTTGACATAATTATCTTCCTATTTA
NONE
Os.39942.1.S1_x_at--808--233Chr07:12570134..12570158 (25 bp)
ATATTTGAGTTTAGGAATGCCGTAC
NONE
Os.39942.1.S1_x_at--901--9773Chr03:20491804..20491828 (25 bp)
TAAGAGGGATACAACGTCGAGGTGT
NONE
Os.39942.1.S1_x_at--376--1051Chr04:11522954..11522978 (25 bp)
AGGTGTATATGCCACCGGTTTCACC
LOC_Os04g20630
Os.39942.1.S1_x_at--236--4211Chr04:11522930..11522954 (25 bp)
CCCCTAACTTGAATAAGCCATTATA
LOC_Os04g20630
Target Sequence 
TTGGGACCCGACACTGAAGATGTGGGATACAAAGTTACTACTATGGCAAGACGGTGAAGGACAAGCAATGCTCGGTCACG
ATGGACCATGCGGCGGTGAAGGGCAAGCAAGGGGCTTGGTGCCAAAGAACCAAATCCGGTGGTGAAGGGTGAGTGACGGC
TTTGTCATGATGGACCGTGCGAGGCCATTTGAAGCTACAAGTAATCGCATCAATCATTTGAGGAATATATGGTGAAACGG
TTTTGGCATTGGTATCCCTTAAGACAATAAAAGAAAGATGAAAAGAAGGCATTCCTGTTGACATAATTATCTTCCTATTT
ATATTTGAGTTTAGGAATGCCGTACTATTAAGAGGGATACAACGTCGAGGTGTATATGCCACCGGTTTCACCCCCTAACT
TGAATAAGCCATTATA

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.39942.1.S1_x_at     

Putative homologies in rice

Putative homologies in arabidopsis