Browse Element(s) Details


Os.5178.1.A1_s_at

Description gb:AK105637.1
DB_XREF= gi:32990846
TID=Os.5178.1
CNT=2
FEA=FLmRNA
TIER=FL
STK=2
UG=Os.5178 (NCBI UniGene Cluster)
UG_TITLE=(japonica cultivar-group) cDNA clone:001-200-E02, full insert sequence
DEF=Oryza sativa (japonica cultivar-group) cDNA clone:001-200-E02, full insert sequence.
FL= gb:AK105637.1
REP_ORG=O. sativa
Associated TIGR Gene Locus
TIGR LocusMatching ProbesDescription
LOC_Os03g5695011/11Helix-loop-helix DNA-binding domain containing protein, expressed
Gene Context (flanking 25kb)
TIGR LocusMatching ProbesetMatching ProbesChrStrandCoordinatesDescription
LOC_Os03g56904NANA3+32346117..32346965hypothetical protein
LOC_Os03g56910OsAffx.21308.1.S1_at11/113+32350142..32354070retrotransposon protein, putative, LINE subclass
LOC_Os03g56920OsAffx.21308.2.S1_at11/113+32357267..32359357expressed protein
LOC_Os03g56920OsAffx.21308.2.S1_x_at11/113+32357267..32359357expressed protein
LOC_Os03g56930Os.14921.1.S1_at10/113+32362177..32363525expressed protein
LOC_Os03g56940Os.11958.1.S1_at11/113+32364586..32365731expressed protein
LOC_Os03g56942NANA3+32365942..32366361hypothetical protein
LOC_Os03g56944NANA3+32366973..32367597expressed protein
LOC_Os03g56950Os.5178.1.A1_s_at11/113+32371392..32374781Helix-loop-helix DNA-binding domain containing protein, expressed
LOC_Os03g56960Os.7686.1.S1_at11/113+32379821..32382915pentatricopeptide, putative, expressed
LOC_Os03g56970Os.2803.1.S1_a_at1/113+32383301..32387843actin-related protein 7, putative, expressed
LOC_Os03g56974Os.57386.1.S1_at6/113+32395806..32396621hypothetical protein

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Gene Ontology Classification
GO idTypeName
GO:0003677molecular_functionDNA binding
GO:0003700molecular_functiontranscription factor activity
Probe Info
Probe NameHit(s)LocationSequenceTIGR Locus
Os.5178.1.A1_s_at--222--5211Chr03:32373563..32373587 (25 bp)
GAATTCTGCGTGCATGCCTGCGGCA
LOC_Os03g56950
Os.5178.1.A1_s_at--823--10131Chr03:32373632..32373656 (25 bp)
TATGCCAAATCACATCCCTCTAAAT
LOC_Os03g56950
Os.5178.1.A1_s_at--561--3151Chr03:32373654..32373678 (25 bp)
AATTCATCTCCAGCTATGAACCCAA
LOC_Os03g56950
Os.5178.1.A1_s_at--487--6011Chr03:32373713..32373737 (25 bp)
GAGAGAGGCAAGCAATCCCTTCCTT
LOC_Os03g56950
Os.5178.1.A1_s_at--399--2471Chr03:32373755..32373859 (25 bp)
AACAGTGCCACCACAGGTATCAGGA
LOC_Os03g56950
Os.5178.1.A1_s_at--443--411Chr03:32373853..32373877 (25 bp)
ATCAGGACCATATGCTTCTGGGCCT
LOC_Os03g56950
Os.5178.1.A1_s_at--430--10611Chr03:32373868..32373892 (25 bp)
TTCTGGGCCTCAAGTAGCACAGCAA
LOC_Os03g56950
Os.5178.1.A1_s_at--471--5551Chr03:32373904..32373928 (25 bp)
GAAAGCGTCAGCTAGCACTGTTCTG
LOC_Os03g56950
Os.5178.1.A1_s_at--402--5511Chr03:32373944..32373968 (25 bp)
GAACAACCACCAACCTCTGATGGAA
LOC_Os03g56950
Os.5178.1.A1_s_at--266--8291Chr03:32374544..32374568 (25 bp)
GGCTTTGCACAAAGGGTCGTCTTTC
LOC_Os03g56950
Os.5178.1.A1_s_at--876--2851Chr03:32374745..32374769 (25 bp)
AAGTGCCAGTGGCAATCTTTGCCCT
LOC_Os03g56950
Target Sequence 
GAATTCTGCGTGCATGCCTGCGGCACAAGGCCTAAGTCACATGTCAAGATTGCCATACATGAACCATTCTATGCCAAATC
ACATCCCTCTAAATTCATCTCCAGCTATGAACCCAATGAATGTTGCAAACCAGATGCAGAACATTCAACTGAGAGAGGCA
AGCAATCCCTTCCTTCACCCAGATGGCTGGCAAACAGTGCCACCACAGGTATCAGGACCATATGCTTCTGGGCCTCAAGT
AGCACAGCAAAACCAGATACCGAAAGCGTCAGCTAGCACTGTTCTGCCAAATTCTGGGGCTGAACAACCACCAACCTCTG
ATGGAATTTAGAATGACCAGAAACATGATAAGGAATTCAATGTAGGCTTTGCACAAAGGGTCGTCTTTCTGGAGATAGCT
GAAAATATTGACATGATGAACAGATTGCATCCATATTGCTGTTATGTATCTCAATCAGTATCTGTCTGACATAAATGCTA
CAAGTGTCTGTAAATGCACATAGCATTTCCCCCCTTCCCTAAGATGCTAATTCCCAGTGTATGTACTAATAATCCTTATA
ATATGAAGTGCCAGTGGCAATCTTTGCCCT

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.5178.1.A1_s_at     

Putative homologies in rice

Putative homologies in arabidopsis