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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgcagtagcaaatatgatgtgccaaataatttgtgaaagacaaatgatgttgttgatggttctaattgtttttcgtttgtgtttcagATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTTAGAGGGACTCTTTTGACATCAAGTGTTTCAGCACAGCTTTGTCAGGGCAT

Basic information

species Zea mays
transcript GRMZM2G376074_T01
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G376074_T01 (Zea mays), 3'ss of exon 13
lower sequence: LOC_Os03g09270.1 (Oryza sativa), 3'ss of exon 4
gtgcagtagcaaatatgatgtgccaaataatttgtgaaagacaaatgatgttgttgatggttctaattgtttttcg---tttgtgtttcagATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTTAGAGGGACTCTTTTGACATCAAGTGTTTCAGCACAGCTTTGTCAGGGCAT---
||| || | ||| | | ||||||  || | ||| |||||    |||||| |||||||||||||   || || || |   ||  |||||||||||| ||||| |||||||||| ||   || | |||  ||||||||||||| | |||||||| |||||||| |||| |||||| |||||||| ||||  ||   
gtgaagcaacaattgtaatgtgctgaaca-tttctgaaa----aatgatattgttgatggttcatttttttctttgcccttgatgtttcagATGAAATTTCGGAGCAGAAGGTTG---TAGTACAGACTGAGGAAGGCTTTCGTGGGACTCTGTTGACATCTAGTGCTTCAGCTCAGCTTTGCCAGGATATATC
















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|67025740|gb|CO454489.1|CO454489
EST:     TGTTCTTTGGTTCAGAGACTCTGAAATCTTTGAGAACCGTGACATAGCAG                         ATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTNT
genomic: TGTTCTTTGGGTCAGAGACTCTGAAATCTTTGAGAACCGTGACATAGCAGgtgcagtagc ... tgtgtttcagATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTT-T
EST: gi|60345273|gb|DN212246.1|DN212246
EST:     TGTTCTTTGGGTCAGAGACTCTGAAATCTTTGAGAACCGTGACATAGCAG                         ATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTTA
genomic: TGTTCTTTGGGTCAGAGACTCTGAAATCTTTGAGAACCGTGACATAGCAGgtgcagtagc ... tgtgtttcagATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTTA
EST: gi|211478836|gb|FL266343.1|FL266343
EST:     TGTTCTTTGGGTCAGAGACTCTGAAATCTTTGAGAACCGTGACATAGCAG                         ATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTTA
genomic: TGTTCTTTGGGTCAGAGACTCTGAAATCTTTGAGAACCGTGACATAGCAGgtgcagtagc ... tgtgtttcagATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTTA
EST: gi|76284352|gb|DV023920.1|DV023920
EST:     TGTTCTTTGGGTCAGAGACTCTGAAATCTTTGAGAACCGTGACATAGCAG                         ATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTTA
genomic: TGTTCTTTGGGTCAGAGACTCTGAAATCTTTGAGAACCGTGACATAGCAGgtgcagtagc ... tgtgtttcagATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTTA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gtgaaagacaaatgatgttgttgatggttctaattgtttttcgtttgtgtttcagATGAGATTTCAGAGCAGAAGGGTGATATACTGCAGGTTGAGGAAGGCTTTAGAGGGACTCTTTTGACATCAAGTGTTTCAGCACAGCTTTGTCAGGGCAT
                           ttctaat  putative branch site (score: 2)
                                    tttttcgttt  putative PPT
                           ttctaattgttttt  TA-rich tract