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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tgtcatgtagcattaatggttatgtggcattacatgtttggggtaaattagaggtggatatgacaatgattttactaaaatttgcgctccacactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGTGCAG

Basic information

species Zea mays
transcript GRMZM2G030902_T02
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G030902_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os01g71770.1 (Oryza sativa), 3'ss of exon 7
tgtcatgtagcattaatggttatgtggcattacatgtttggggtaaattagaggtggatatgacaatgattttactaaaatttgcgctccacactc-----------acagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGTGCAG
    ||  |  ||| |   |||| ||| | |  |||   | | || | |   | |  |||||| || ||||||||| ||||  |   ||||| |||             ||||||||||||||||||| ||||||||||||||||| ||||| |||||||||||||
---aattgattattga-aattatatggtaatgaatg---gagctacaat---gctaaatatgataa-gattttactgaaatgagtcttccaccctcctgttttgtgtgtagGAACATGGTTCAAAGGGTCATCGTGGAATTGGGTTCATCACTTTTCAGAGTGCAG

upper sequence: GRMZM2G030902_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv07s0031g00600.t01 (Vitis vinifera), 3'ss of exon 7
---tgtcatgtagcattaatggttatgtggcattacatgtttggggtaaattagaggtggatatgacaatgattttactaaaatttgcgctccacactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGTGCAG
   | |  |||    ||   | | ||| |  ||  ||  ||    | ||  |  |    ||  || ||   |   | | ||| | |           |  ||||| ||||| ||||| |||||||||||||||||||||||||| |||   |||||||
ttctttgttgtttttttttggataatgagaaatc-caccttgacagcaagattcatcctgac-tgccatccaaactcccaaattatttttattgt-tttgcagGATCATGGATCAAAAGGGCATCGTGGAATTGGGTTTATCACATTTGCAAGTGCAG
















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|148936779|gb|EC880917.2|EC880917
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|22545757|gb|BU098131.1|BU098131
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGGGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|71769697|gb|DR967634.1|DR967634
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|149096474|gb|EE182216.2|EE182216
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|149000018|gb|EE037116.2|EE037116
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|149104935|gb|EE290405.2|EE290405
EST:     GCATTTTTGA-GCTTTTGGAGAAATTCTTGATCTTTACATGCCCAAG                         GAACATGGTTCAAAGGG
genomic: GCATTTT-GAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGG
EST: gi|71304925|gb|DR788593.1|DR788593
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GGACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|211138007|gb|FL213712.1|FL213712
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|149080743|gb|EE169805.2|EE169805
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|21432115|gb|BQ547605.1|BQ547605
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|60350487|gb|DN217460.1|DN217460
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|32847027|gb|CD986708.1|CD986708
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGT
EST: gi|26558086|gb|CA830321.1|CA830321
EST:     GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAG                         GAACATGGTTCAAAGGGGCATCGTGGAATTGGGGTTTATCACGTTTCAGAG
genomic: GCATTTTGAAGCTTTTGGAGAAATTCTTGATCTTTACATGCCAAAGgttagaaaaa ... acactcacagGAACATGGTTCAAAGGGGCATCGTGGAATT-GGGTTTATCACGTTTCAGAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

aattagaggtggatatgacaatgattttactaaaatttgcgctccacactcacagGAACATGGTTCAAAGGGGCATCGTGGAATTGGGTTTATCACGTTTCAGAGTGCAG
                           tactaaa  putative branch site (score: 1)
                 acaatgattttactaa  TA-rich tract