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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaatttgttcttccttttttgccatccatgcattgctctatttttgttcctctgaagcctagccaagtcactaaacatcatattaactgccttttagCCTGATGTTTCTGTCGAAGCGGAAACAGGTAAAATGTACAGGGCAAGTTTCCGAGACAGGGAGGGCAGAACTGTTGTTGTCATGAAACCTACAAAACAA

Basic information

species Zea mays
transcript GRMZM2G443453_T02
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G443453_T01 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os03g51430.2 (Oryza sativa), 3'ss of exon 3
gtaaatttgttcttccttttttgccatccatgcattgctctatttttgttcctctgaagcctagccaagtcactaaac-atcatattaactgcctt-----------ttagCCTGATGTTTCTGTCGAAGCGGAAACAGGTAAAATGTACAGGGCAAGTTTCCGAGACAGGGAGGGCAGAACTGTTGTTGTCATGAAACCTACAAAACAA
||||||    | |||||||||   |       || |    |||||     ||  ||||  || |   ||| |||| || ||| ||||||| || ||           |||||| ||  ||||||| ||| | |||||||||||||||||||| ||||||||   ||| || ||||| |||||||| ||  | |||| |||  |||| || 
gtaaatccactattcctttttcttctcttgctcaattgattattt-----cccttgaaatcttgttgagtgactagaccatcctattaacagctttcttctgtaattttagCCCGAGATTTCTGTTGAATCAGAAACAGGTAAAATGTACAGAGCAAGTTTTGTAGATAGAGAGGGGAGAACTGTCGTCATTATGAGACCCGCAAAGCAG
















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|29543813|gb|CB604193.1|CB604193
EST:     AAGAAAGTCTCAAGTGGAGGGCAGCTTACAAGCCAGAGGATATTCGTTGG                         CCTGATGTTTCTGTCGAAGCGGAAACAGGTAAAATGTACAGGGCAAGTTTC
genomic: AAGAAAGTCTCAAGTGGAGGGCAGCTTACAAGCCAGAGGATATTCGTTGGgtaaatttgt ... tgccttttagCCTGATGTTTCTGTCGAAGCGGAAACAGGTAAAATGTACAGGGCAAGTTTC
EST: gi|89761846|gb|DY689697.1|DY689697
EST:     AAGAAAGTCTCAAGTGGAGGGCAGCTTACAAGCCAGAGGATATTCGTTGG                         CCTGATGTTTCTGTCGAAGCGGAAACAGGTAAAATGTACAGGGCAAGTTTC
genomic: AAGAAAGTCTCAAGTGGAGGGCAGCTTACAAGCCAGAGGATATTCGTTGGgtaaatttgt ... tgccttttagCCTGATGTTTCTGTCGAAGCGGAAACAGGTAAAATGTACAGGGCAAGTTTC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttcctctgaagcctagccaagtcactaaacatcatattaactgccttttagCCTGATGTTTCTGTCGAAGCGGAAACAGGTAAAATGTACAGGGCAAGTTTCCGAGACAGGGAGGGCAGAACTGTTGTTGTCATGAAACCTACAAAACAA
                                      tattaac  putative branch site (score: 1)
                                            ctgcctttt  CT-rich tract
                             taaacatcatattaa  TA-rich tract