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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagaagctcccttattccatctgattttctatcttgtatttccatattcagatgtaactctaatcttttgttttctcagATAGTTTATGGTAGCAAGGAGTCTCTGGAAAGCTACTGTGCACACTTCTTGTTATCAAGGGACATAGTCTATTTTGTCAAGGTCGAAAGCCGGGATTCTT

Basic information

species Oryza sativa
transcript LOC_Os01g62440.1
intron # 4
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: LOC_Os01g62440.2 (Oryza sativa), 3'ss of exon 4
lower sequence: GRMZM2G082260_T01 (Zea mays), 3'ss of exon 4
gtcagaagctcccttattccatctgattttctatcttgtat-ttccatattcagatgtaactctaatcttttgttttctcagATAGTTTATGGTAGCAAGGAGTCTCTGGAAAGCTACTGTGCACACTTCTTGTTATCAAGGGACATAGTCTATTTTGTCAAGGTCGAAAGCCGGGATTCTT
|||||| ||||    | |   | |||||  ||| ||| | | || || || |  || |   | |    | |  ||| |||||||||| ||||||| |||||||||| |||||||||||||||||||  ||||||| ||||||||  |||| |||||||||||||| || ||| | |||| ||
gtcagaggctcttcaaatttgtttgattccctaacttttttctttcacatactcatatgttttt----tgtgatttcctcagATAGTGTATGGTACCAAGGAGTCTTTGGAAAGCTACTGTGCACATCTCTTGTTGTCAAGGGATGTAGTGTATTTTGTCAAGGTAGAGAGCAGAGATTATT
















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|29670923|gb|CB667198.1|CB667198
EST:     TGGAGCTTTCTGAGAATGATAAATCAGTAACAGTAGAGGAGTTCGCAGAG                         ATAGTTTATGGTAGCAAGGAGTCTCTGGAAAGCTACTGTGCACACTTCTTG
genomic: TGGAGCTTTCTGAGAATGATAAATCAGTAACAGTAGAGGAGTTCGCAGAGgtcagaagct ... gttttctcagATAGTTTATGGTAGCAAGGAGTCTCTGGAAAGCTACTGTGCACACTTCTTG






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttttctatcttgtatttccatattcagatgtaactctaatcttttgttttctcagATAGTTTATGGTAGCAAGGAGTCTCTGGAAAGCTACTGTGCACACTTCTTGTTATCAAGGGACATAGTCTATTTTGTCAAGGTCGAAAGCCGGGATTCTT
                                 ctctaat  putative branch site (score: 3)
                                       tcttttgttttctc  CT-rich tract
                                    taatcttttgtttt  TA-rich tract