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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaattttctactgcagtgattaggaatgtttttgttcctggttactcacataatatcgtggcagGGAGGCATTGATGATGGCGGAGCTGCATCTGTGAGAGCAATTATGCATTGGCAATACCGGACTATCTGTAGAGGCCCTAATTCTATACTTCAGAATCTAT

Basic information

species Oryza sativa
transcript LOC_Os05g29050.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os05g29050.1 (Oryza sativa), 3'ss of exon 13
lower sequence: GRMZM2G066485_T01 (Zea mays), 3'ss of exon 13
gtaattttctactgcagtgattaggaatgtttttgtt-cctggttactcacataatatcgtggcagGGAGGCATTGATGATGGCGGAGCTGCATCTGTGAGAGCAATTATGCATTGGCAATACCGGACTATCTGTAGAGGCCCTAATTCTATACTTCAGAATCTAT
||| |||||||||  ||   ||||  || | || | | | |||||||| ||||||| || || |||||||||||||||||||| ||||| ||||| || || ||||| |||||||||||||| ||||||||||| |||||  ||||||| || |||||||||||||
gtagttttctact--agaagttagagatatgttcgatgcttggttacttacataatctcatgacagGGAGGCATTGATGATGGTGGAGCAGCATCAGTCAGGGCAATCATGCATTGGCAATATCGGACTATCTGCAGAGGTTCTAATTCGATTCTTCAGAATCTAT
















Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|11442731|gb|BF430634.1|BF430634
EST:     NNNNGCGCTTCAAAGCCATCATAATAATACCTCTGTTACCTGGTTTTCAG                         GGAGGTATTGATGATGGCGGAGCTGCATCTGTGAGAGCAATTATGCATTGG
genomic: AAAAGCGCTTCAAAGCCATCATAATAATACCTCTGTTACCTGGTTTTCAGgtaattttct ... atcgtggcagGGAGGCATTGATGATGGCGGAGCTGCATCTGTGAGAGCAATTATGCATTGG
EST: gi|33797063|gb|CF324398.1|CF324398
EST:     GCGCTTCAAAGCCATCATAATAATACCTCTGTTACCTGGTTTTCAG                         GGAGGCATTGATGATGGCGGAGCTGCATCTGTGAGAGCAATTATGCATTGG
genomic: GCGCTTCAAAGCCATCATAATAATACCTCTGTTACCTGGTTTTCAGgtaattttct ... atcgtggcagGGAGGCATTGATGATGGCGGAGCTGCATCTGTGAGAGCAATTATGCATTGG
EST: gi|33677625|gb|CF305864.1|CF305864
EST:     NNNNGCGCTTCANAGCCATCATAATAATACCTCTGTTACCTGGTTTTCAG                         GGAGGCATTGATGATGGCGGAGCTGCATCTGTGAGAGCAATTATGCATTGG
genomic: AAAAGCGCTTCAAAGCCATCATAATAATACCTCTGTTACCTGGTTTTCAGgtaattttct ... atcgtggcagGGAGGCATTGATGATGGCGGAGCTGCATCTGTGAGAGCAATTATGCATTGG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

actgcagtgattaggaatgtttttgttcctggttactcacataatatcgtggcagGGAGGCATTGATGATGGCGGAGCTGCATCTGTGAGAGCAATTATGCATTGGCAATACCGGACTATCTGTAGAGGCCCTAATTCTATACTTCAGAATCTAT
                                 tactcac  putative branch site (score: 1)
               aatgttttt  TA-rich tract