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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtagttagtgctaccaaaccatcataatgaaattgctgcctcatgtgtgaattggatcatgattgtattttctctctcgtctcttcggtgatgacagATCCAGATCGATGTGGAAAGTTTTGTGAATTCTTTCCGACCCGACATAATGGAAGCGGTGTATTCATGGGCCAGAGGGTCGAAGTTCTACCAAATCATGG

Basic information

species Zea mays
transcript GRMZM2G040995_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G040995_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os12g18140.1 (Oryza sativa), 3'ss of exon 13
gtagttagtgctaccaaaccatcataatga--aattgctgcctcatgtgt--------------gaattggatcatgattgtattttctctctcg------------tctcttcggtgatgacagATCCAGATCGATGTGGAAAGTTTTGTGAATTCTTTCCGACCCGACATAATGGAAGCGGTGTATTCATGGGCCAGAGGGTCGAAGTTCTACCAAATCATGG
||| ||  |   || || ||||||||  ||    ||| ||    |  |||              || |||   ||  ||||||| ||    ||              ||   | |  ||||||||||||| || || ||||| ||||||||||| |||||||| || || |||||||||||||||||||||||||||| ||| || || ||||| ||||||||||
gtaattgatataactaagccatcatatggattgtttgttgatataattgttataaagctaggtggacttgctccagaattgtatcttaatgctgaaacaaaatgttctcgtcttgccgatgacagATCCAAATTGACGTGGAGAGTTTTGTGAACTCTTTCCGGCCTGATATAATGGAAGCGGTGTATTCATGGGCCAAAGGATCCAAATTCTATCAAATCATGG
















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|6654165|gb|AW267570.1|AW267570
EST:     AGCTGCAGGAGNCAGCAAGAAGGGTTGCTAACCTTCAGCTTGAATGCAAG                         ATCCAGATCGATGTGGAAAGTTTTGTGAATTCTTTCCGACCCGACATAATG
genomic: AGCTGCAGGAGACAGCAAGAAGGGTTGCTAACCTTCAGCTTGAATGCAAGgtagttagtg ... gtgatgacagATCCAGATCGATGTGGAAAGTTTTGTGAATTCTTTCCGACCCGACATAATG
EST: gi|32944221|gb|CF049040.1|CF049040
EST:     GGGTTGCTAACCTTCAGCTTGAATGCAAG                         ATCCAGATCGATGTGGAAAGTTTTGTGAATTCTTTCCGACCCGACATAATG
genomic: GGGTTGCTAACCTTCAGCTTGAATGCAAGgtagttagtg ... gtgatgacagATCCAGATCGATGTGGAAAGTTTTGTGAATTCTTTCCGACCCGACATAATG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atgtgtgaattggatcatgattgtattttctctctcgtctcttcggtgatgacagATCCAGATCGATGTGGAAAGTTTTGTGAATTCTTTCCGACCCGACATAATGGAAGCGGTGTATTCATGGGCCAGAGGGTCGAAGTTCTACCAAATCATGG
                         ttttctctctcgtctc  CT-rich tract
                   attgtatttt  TA-rich tract