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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaaggaaacctttaaaattgtcctataatgatcttgaaaattctcttcatttctcttggcattaggcgttatcattctcattacttgctgttaaattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCATCATGGTAGCCTACAACAACAAACAATATTATATTGATATTGTTGAAACA

Basic information

species Zea mays
transcript GRMZM2G114220_T01
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G114220_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os04g48770.2 (Oryza sativa), 3'ss of exon 3
gtaaggaaacctttaaaattgtcctataatgatcttgaaaattctcttcatttctcttggcattaggcgttatcattctcattacttgctgttaaattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCATCATGGTAGCCTACAACAACAAACAATATTATATTGATATTGTTGAAACA
|| |||| |   | ||||   |||  || |        |||  |  | | |||||   || | |   | || | ||  | ||   ||||| |   |  || |||| |||| |||||  ||||||| || || ||  ||||||| || || || ||||||||||| ||||||||||||||||| || ||||| ||||||||||||
gtgaggatatgataaaaacgctccattatt--------aaaaccattccgtttcttggggaaatcatcattctaatgataatgctttgctttgtgacattgcagCCTGGAGAAAACACTAAGAAAGTTGTCTTGTATAACCACCGGCGATAGTATCATGGTAGCTTACAACAACAAACAATACTACATTGACATTGTTGAAACA

upper sequence: GRMZM2G114220_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA05G34630.2 (Glycine max), 3'ss of exon 7
----gtaaggaaacctt--taaaattgtcctataatgatctt-gaaaattctcttcatttctcttggcattaggcgttatcattctcattacttgctgttaaattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCATCATGGTAGCCTACAACAACAAACAATATTATATTGATATTGTTGAAACA
    ||  |||  |  |  ||   | || || || | |  || | | | |  ||||| ||   |   ||||  |   | | ||| |  ||  ||            | |||||| |||| ||| || || ||||| |||||||| || || ||||| ||||| ||||| || |||||||||||  ||||||| || |||||| | ||||| 
ggatgtggggatcctctgttagcttggttctgtatttactttcgcacactgacttcagttagatcttcatttagatatttgattgtactttttta-----------tgcagCTTAGAAACAACATTGAGGAATTTTTCCTGCTTGACTACTGGAGATAGCATTATGGTGGCTTACAACAACAAGAAATATTACATAGATATTATAGAAACT

upper sequence: GRMZM2G114220_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA08G05030.1 (Glycine max), 3'ss of exon 7
gtaaggaaaccttta--aaatt--gtcctataa--tgatcttgaaaattctcttc------atttctcttggcattaggcgttatcattctca----------ttacttgctgttaaattttc---cagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCATCATGGTAGCCTACAACAACAAACAATATTATATTGATATTGTTGAAACA
|| ||   || ||||  || ||  ||   ||||    ||  | | | ||| || |       |||||||||    |   | ||  ||  || |          ||| ||| |  |   ||||    |||||| |||| ||| || || ||||| |||||||| || || ||||| ||||||||||| || |||||||||||  ||||||| || |||||| | ||||| 
gtgagttgacatttattaagtttagtttgataaatctatgattatatttccctaccaatgagtttctcttgagtatttacattcacacactgacttgagttagttatttgattgtgcttttttatgcagCTTAGAAACAACATTGAGGAATTTTTCCTGCTTGACTACTGGAGATAGCATCATGGTGGCTTACAACAACAAGAAATATTACATAGATATTATAGAAACT

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|211389874|gb|FL156779.1|FL156779
EST:     TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCAT                         CTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
genomic: TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
EST: gi|211392499|gb|FL156788.1|FL156788
EST:     TGCAACCTCACACAACTGATTTTCTGGATATTTCAAAACCGAAAGCCAAT                         CTGGGAAAAA-CTTTTAAGAAATTTC
genomic: TGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCA-Tgtaaggaaac ... aattttccagCTTGGAAAAAACTTT-AAGAAATTTC
EST: gi|32850146|gb|CD989827.1|CD989827
EST:     TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCAT                         CTTGGAAAAAGCTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
genomic: TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
EST: gi|76909136|gb|DV163240.1|DV163240
EST:     TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCAT                         CTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
genomic: TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
EST: gi|71417924|gb|DR804257.1|DR804257
EST:     TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCAT                         CTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
genomic: TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
EST: gi|91049005|gb|EB159423.1|EB159423
EST:     TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCAT                         CTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
genomic: TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
EST: gi|60349374|gb|DN216347.1|DN216347
EST:     GATTTTCTGGATATTTCAAACCCGAAAGCCAT                         CTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
genomic: GATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
EST: gi|91873355|gb|EB403312.1|EB403312
EST:     TTGCAACCTCACACAACTGATTTTCTGGATATTTCACACCCGAAAGCCAT                         CTTTGGAAAAAACTTTAAGACATTTCTCCTGCTTAACCACGGGGAGACAGC
genomic: TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTT-GGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGG-AGACAGC
EST: gi|14242735|gb|BG840580.2|BG840580
EST:     TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCAT                         CTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
genomic: TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
EST: gi|213183590|gb|FM196389.1|FM196389
EST:     TTGCAACCTCACACAACTGATTTTCTGGATCTTTCNNNCCCGAAAGCCAT                         CTTGGAAAAAACTTTAAGAAATTTCTCCTGCTNNNCCACGGGNNNCAGCAT
genomic: TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
EST: gi|84970179|gb|DW468529.1|DW468529
EST:     ATTTCAAACCCGAAAGCCAT                         CTTGGAAAAAACTTTAAGAAATTTCTCCTTGCTTAACCACGGGAGACAGCA
genomic: ATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCC-TGCTTAACCACGGGAGACAGCA
EST: gi|93015584|gb|EB641104.1|EB641104
EST:     TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCAT                         CTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT
genomic: TTGCAACCTCACACAACTGATTTTCTGGATATTTCAAACCCGAAAGCCATgtaaggaaac ... aattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atttctcttggcattaggcgttatcattctcattacttgctgttaaattttccagCTTGGAAAAAACTTTAAGAAATTTCTCCTGCTTAACCACGGGAGACAGCATCATGGTAGCCTACAACAACAAACAATATTATATTGATATTGTTGAAACA
                                               ttttcc  CT-rich tract
                                        tgttaaatttt  TA-rich tract