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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...caaatagatgcgatttgactagtcttttcattaggcgtattccactcatttgctgttccaacgccaacttgatattgtttccaaacatttttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCAGGAGTTCCAGCCTAGAAGAATAAGCTTGCTTGCCCCATTTTCTTCCCTC

Basic information

species Zea mays
transcript GRMZM2G096470_T01
intron # 16
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G096470_T01 (Zea mays), 3'ss of exon 16
lower sequence: LOC_Os01g61860.2 (Oryza sativa), 3'ss of exon 16
-------caaatagatgcgat-ttgactagtcttttcattaggcgtattccactcatttgctgttccaacgccaacttgatattgtttccaaacatttttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCAGGAGTTCCAGCCTAGAAGAATAAGCTTGCTTGCCCCATTTTCTTCCCTC
       |||  | || | ||  || | |    ||   | |     |||||| ||||||||| |    |  |||| |||    ||| |  || | |||||  |  |||||| |||||  | ||||||||||| ||||||| ||||||||||||||| |||||||| || |||||||||||||| |||||||| || |||||      |
ataaatgcaataatattcaatactggcaaaatgttctgtgaaaa--attccagtcatttgcttt----ataccaa-ttgtccctgtgtgtaacc-tttttatttttagGACACCAACAAGGGATGCATCACCTGGCCAAGTGAACCAAGATTCATCACAGGAGTTTCAACCTAGAAGAATAAGTTTGCTTGCTCCGTTTTCCCTTGGC
















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|101398466|gb|EB821106.1|EB821106
EST:     CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAG                         GACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
genomic: CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAGgtctggtctt ... ttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
EST: gi|67021387|gb|CO450136.1|CO450136
EST:     CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCTTCTCCTTCTCCAAG                         GACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
genomic: CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAGgtctggtctt ... ttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
EST: gi|67018060|gb|CO446809.1|CO446809
EST:     CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAG                         GACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
genomic: CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAGgtctggtctt ... ttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
EST: gi|86468680|gb|DY235050.1|DY235050
EST:     TCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAG                         GACCCCAACTCGAGATGCATCATCAGGCCAAGGGAACCAAGATTCATCGCA
genomic: TCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAGgtctggtctt ... ttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
EST: gi|78111976|gb|DV530372.1|DV530372
EST:     CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAG                         GACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
genomic: CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAGgtctggtctt ... ttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
EST: gi|78074754|gb|DV503188.1|DV503188
EST:     CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAG                         GACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA
genomic: CAATCTAGTCAGCAGAAAGCACAGCTTCCATCGCCCTCTCCTTCTCCAAGgtctggtctt ... ttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tcatttgctgttccaacgccaacttgatattgtttccaaacatttttcctcatagGACCCCAACTCGAGATGCATCACCAGGCCAAGGGAACCAAGATTCATCGCAGGAGTTCCAGCCTAGAAGAATAAGCTTGCTTGCCCCATTTTCTTCCCTC
                     acttgat  putative branch site (score: 5)
                                        catttttcctc  putative PPT
                                     aaacattttt  TA-rich tract