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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gttggttcttctttgcacacatgaatcagcagtatttgacgtggaacttgcaacttgcgggtgcatcatgtactaatgttcatttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGCGTTCTGAACATTGCACCTGGTTCAGGACGATACGTCATGATGCCACCTT

Basic information

species Zea mays
transcript GRMZM2G020002_T02
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G020002_T02 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os01g59340.2 (Oryza sativa), 3'ss of exon 15
gttggttcttctttgcacacatgaatcagcagtatttgacgtggaacttgcaacttgcgggtgcatcatgtactaatgttcatttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGCGTTCTGAACATTGCACCTGGTTCAGGACGATACGTCATGATGCCACCTT
|| ||| | || || | ||||        | | |||||      | |||| |     |   ||  |  | |     |  ||| |  |||||||||||||| ||| | || |||||||| || ||||| || |||||||||||| |||||||| |||  || ||||||||| |||||||||  |  || ||||
gtcggtccctcgttactcaca-------actgcatttgcaa--aagcttgaattcaacttatgttttctttttctct-ctcaatcggtgtagGGAATGGTAGAAGTCACGATCTCAAGAGGGCGAGTTGTGTGGGAGGATGGCATTCTGAACGTTGTTCCCGGTTCAGGAAGATACGTCAGAACACCGCCTT
















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|149070477|gb|EE158879.2|EE158879
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGAGGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|74240936|gb|DT648850.1|DT648850
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|211361841|gb|FL432810.1|FL432810
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|32809720|gb|CD961954.1|CD961954
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|28187829|gb|CB179439.1|CB179439
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|78079711|gb|DV508123.1|DV508123
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|148990302|gb|EE031901.2|EE031901
EST:     CACCCCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|18176646|gb|BM351579.1|BM351579
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|113703820|gb|EE681324.1|EE681324
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|148929734|gb|EC876616.2|EC876616
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGAGGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
EST: gi|149082367|gb|EE171551.2|EE171551
EST:     CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAG                         GGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC
genomic: CACACCATTCGAGGTCCAACACCAATGTGTACGAGGGCAGGAAAGGAAAGgttggttctt ... tttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gacgtggaacttgcaacttgcgggtgcatcatgtactaatgttcatttcgtgtagGGAATGGTGGAAATAACAATCTCAAGGGGCCGAGTGGTATGGGAGGATGGCGTTCTGAACATTGCACCTGGTTCAGGACGATACGTCATGATGCCACCTT
                                 tactaat  putative branch site (score: 1)
                                         ttcatttc  CT-rich tract
                                 tactaat  TA-rich tract