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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagtgttctgcactgtccataccatgtcggccatctatggattttcgccattttggtttaatctgattccaccacttcctttttttgctttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT

Basic information

species Zea mays
transcript GRMZM2G131756_T02
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G131756_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g37410.1 (Oryza sativa), 3'ss of exon 10
gtaagtgttctgcactgtccataccat----gtcggccatctatggattttcgccattttggtttaatctgattccaccacttcctttttttgctttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
|||||  |  |||| |||| |   |||     |      |||     |||     ||| || || ||| | | |  |    ||   || |||| |   | | ||||| ||| ||||||| |||||||||||||| || |||||||| || |||||||| ||||| || |||||
gtaagaatgttgcattgtctactacatttgtataaatactctgcaattttatatgattatgtttcaatttaaatatattgatt---ttgtttgttccttgaaagATACCCTGTCTTGGAGACTATACAAAAGTACCTCTGGCCTCGTCTGTGTAAACTTGATCAACAAACACT

upper sequence: GRMZM2G131756_T02 (Zea mays), 3'ss of exon 6
lower sequence: LOC_Os05g37350.1 (Oryza sativa), 3'ss of exon 9
gtaagtgttctgcactgtcca-tac-----catgtcggccatctatggattttcgccattttggtttaatctgattccaccacttcctttttttgctttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
|||||  |  |||| |||| | |||      ||     |  |||     |||   | ||  || || ||| ||| |  |    ||   || ||||     ||| ||||| ||| ||||||| |||||||||||||| || |||||||| || |||||||| ||||| || |||||
gtaagaatgttgcattgtctactacagttgtataaatactctctgcaattttatacgatgatgtttcaatttgaatatattgatt---ttgtttgtgccttcaaagATACCCTGTCTTGGAGACTATACAAAAGTACCTCTGGCCTCGTCTGTGTAAACTTGATCAACAAACACT
















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|26559363|gb|CA831598.1|CA831598
EST:     GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCT                         ATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCT
genomic: GTGCCCATTCAACCTCTTCCTGAATCTCTACAGCTACATCTCTTGGAGCTgtaagtgttc ... tttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCT






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttcgccattttggtttaatctgattccaccacttcctttttttgctttgtcacagATATCCTATCTTGGAAACTATACAAAAGTATCTTTGGCCTCGCCTTTGTAAACTCGATCAGCAGACACT
                 atctgat  putative branch site (score: 4)
                       ttccaccacttccttt  CT-rich tract
                                    ttttttt  TA-rich tract