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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaatttaccaacccttctttcctttgtaagattctatacatgaatgtcacgctcgagggataatgaggatgcacaattaatgcacctagGTTCTCGGTATCCCCTGGGATGTTGACACTGAAGGGTTACGAGAGTACATGGCCAAGTTTGGACCCCTAGACGATTGTGTCGTCATGAAG

Basic information

species Zea mays
transcript GRMZM2G060977_T05
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G060977_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g71770.1 (Oryza sativa), 3'ss of exon 2
gtaatttaccaacccttctttcctttgtaagattctatacatgaatgt-------cacgctcgag--------ggataatgaggatgcacaattaatgcacctagGTTCTCGGTATCCCCTGGGATGTTGACACTGAAGGGTTACGAGAGTACATGGCCAAGTTTGGACCCCTAGACGATTGTGTCGTCATGAAG
|||| |   ||| | ||||   |||| || ||||||||| | ||||||       ||   |  |         | | ||||| ||      ||| ||  || |||||||| || ||||| |||||||| ||||||||||| ||| |||||||||||| |||||||||||||||||| ||||| ||||||||||||
gtaagtggacaatctttct---ctttttaggattctataaacgaatgtgtcctttcatagtttaatcattcatgaagaatgatgacatgagatttatttacttagGTTCTTGGAATCCCATGGGATGTGGACACTGAAGGATTAAGAGAGTACATGGGCAAGTTTGGACCCCTAGATGATTGCGTCGTCATGAAG
















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|78107954|gb|DV526372.1|DV526372
EST:     GTTTTTGACATTGATCTGTAGCCAGTACTGCAATGGCTACGAAGCTTGTG                         GTTCTCGGTATCCCCTGGGATGTTGACACTGAAGGGTTACGAGAGTACATG
genomic: GTTTTTGACATTGATCTGTAGCCAGTACTGCAATGGCTACGAAGCTTGTGgtaatttacc ... atgcacctagGTTCTCGGTATCCCCTGGGATGTTGACACTGAAGGGTTACGAGAGTACATG
EST: gi|22490712|gb|BU050635.1|BU050635
EST:     GTTTTTGACATTGATCTGTAGCCAGTACTGCAATGGCTACGAAGCTTGTG                         GTTCTCGGTATCCCCTGGGATGTTGACNCTGAAGGGTTACGAGAGTACATG
genomic: GTTTTTGACATTGATCTGTAGCCAGTACTGCAATGGCTACGAAGCTTGTGgtaatttacc ... atgcacctagGTTCTCGGTATCCCCTGGGATGTTGACACTGAAGGGTTACGAGAGTACATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tatacatgaatgtcacgctcgagggataatgaggatgcacaattaatgcacctagGTTCTCGGTATCCCCTGGGATGTTGACACTGAAGGGTTACGAGAGTACATGGCCAAGTTTGGACCCCTAGACGATTGTGTCGTCATGAAG
                                        aattaat  putative branch site (score: 3)
                                      acaattaat  TA-rich tract