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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtttgttcatgctacatgataagttctttcccacttaatgggcttgattttccaacttgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC

Basic information

species Zea mays
transcript GRMZM2G103812_T01
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: LOC_Os01g68770.1 (Oryza sativa), 3'ss of exon 5
--------------------gtttgttcatgctacatg-----ataagttctttcccacttaatgggcttgattttccaacttgcttacattcctattgc-tgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
                       ||||| |||||  |      ||||   | |        |||  | ||  || |  |   | ||||   |   ||  | ||   |  ||||||||||| ||| | |||||| |||| || ||||||||||||||||| |||||||||||| ||||||||||||| || |||||||| ||||| || ||||
gtttgtccataactccatgccaatgttcttgctattttcttgtataaagccctatttgtccaatttgtttagttgtttactctccttatgcttgcatgacatgacatgacagGTTGCTATATCTATAAAACCATTGAAAGTGCGCAACTGGATTCTGCCTGAAATGCCAGGACTGATAACTGATTTTGTTATCTCTCTGGATGATCGCTATC

upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA18G00590.1 (Glycine max), 3'ss of exon 5
----------------------gtttgttcatgctacatgataagttctttcccacttaatgggcttg-attttccaact-tgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
                       | | |||    |   | |  |  | |    ||   || | |  || || |  |||   | |||| |  | ||    |    ||||||||||| || || ||||||||| |||| || |  ||||||||||| || |||||||| ||  | |||||||||||  | || ||||||||||| || | ||
gtatatcaaaaggatatttaatatctattctgttttggtcagtatatgtacttcaaccaaggtgtatgtatatatcaatgatacttatagac-taagcttacttttgcagGTTGCCATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCTGAAATGCCTGGGCTTATAACTGATTTTCTGATTTCTCTTGATGATCGGTTTC

upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA05G28400.1 (Glycine max), 3'ss of exon 5
------------gtttgttcatgctacatgataagttctttccca--cttaat--gggcttgattttccaacttgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
             |||  | | |     ||   |||  ||   ||   | ||    ||| | ||  || |   | ||||||  |      |||   ||||||||||| || || ||||||||| |||| || |  ||||||||||| || |||||||||||  | |||||||||||  | || ||||| ||||| || | ||
atattcatactcattttgtaaagtagtctggctagtgtttgtgcagcttcaaccaaggcataatgatcaataatacttacagactag--actgactttgcagGTTGCAATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCAGAAATGCCAGGGCTTATAACTGATTTTCTGATATCTCTCGATGATCGGTTTC

upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA11G36670.1 (Glycine max), 3'ss of exon 5
gtttgttcatgc-tacatgataagttctttcc-cacttaatgggcttgattttccaact-tgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
|| | |  | |  ||  | |||  |  |   |  |  || | |  |  || |  |||   | ||||||  |  |   ||    ||||||||||| || || |||||||||||||| || |  ||||||||||| || |||||||| ||  | |||||||||||  | || ||||||||||| || | ||
gtatatcaaaggatatttaatatctattcagcatatgtacttgtatatatatatcaatgatacttacagactaa--acttactttgcagGTTGCCATATCAGTGAAACCACTGAAAGTGCAAAACTGGATTCTTCCTGAAATGCCTGGGCTTATAACTGATTTTTTGATTTCTCTTGATGATCGGTTTC

upper sequence: GRMZM2G103812_T02 (Zea mays), 3'ss of exon 5
lower sequence: GLYMA08G11400.1 (Glycine max), 3'ss of exon 5
------------gtttgttcatgctacatgataagttctttccca--cttaat--gggcttgattttccaacttgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
             |||  |  ||  |  || || |   ||   ||   | ||    ||  | ||  || |   | ||||||  |      |||   ||||||||||| || || ||||||||| |||| || |  ||||||||||| || |||||||| ||  | |||||||||||  | || ||||||||||| || | ||
atatccatactcattttgtattgtcatctggtatgcgtttgtgcagcttcaaccaaggtataatgatcaataatacttacacactag--actgactttgcagGTTGCAATATCAGTGAAACCATTGAAAGTGCAAAACTGGATTCTTCCAGAAATGCCTGGGCTTATAACTGATTTTCTGATATCTCTTGATGATCGGTTTC

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|6021033|gb|AW065961.1|AW065961
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|5895606|gb|AW036852.1|AW036852
EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|85151683|gb|DW587480.1|DW587480
EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|60344862|gb|DN211835.1|DN211835
EST:     ATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: ATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|38502601|gb|CF972461.1|CF972461
EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|83279371|gb|DV943379.1|DV943379
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|32801957|gb|CD954193.1|CD954193
EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATTGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|78076644|gb|DV505078.1|DV505078
EST:     GCAACATGGTGAGA-TTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|31355194|gb|CD439551.1|CD439551
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|18172411|gb|BM347799.1|BM347799
EST:     GCAACATGGTGAGATTTTT-AAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|31354133|gb|CD438490.1|CD438490
EST:     CAACATGGTGAGATTTTTTCA-GACCGCGGATGGATCGTGGAGCCATGAG                         GGTGCTATCTCTGTGAAACCACTGAAG
genomic: CAACATGGTGAGATTTTT-CAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAG
EST: gi|60355186|gb|DN222159.1|DN222159
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|32941574|gb|CF046393.1|CF046393
EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCTGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|31349415|gb|CD433772.1|CD433772
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|31360531|gb|CD444888.1|CD444888
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|6994143|gb|AW453357.1|AW453357
EST:     GCAACATGGTGAGATTTTCCAAGACCGCGGATGGATCGAGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|67021527|gb|CO450276.1|CO450276
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|31362486|gb|CD446843.1|CD446843
EST:     CGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGA
genomic: CGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTG-AAACCACTGAAGGTCCGCAACTGGATTCTGCCGGA
EST: gi|32796562|gb|CD948798.1|CD948798
EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|31355476|gb|CD439833.1|CD439833
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|31356060|gb|CD440417.1|CD440417
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|40334707|gb|CK368777.1|CK368777
EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|14701287|gb|BI233705.1|BI233705
EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|31348673|gb|CD433030.1|CD433030
EST:     GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|67031397|gb|CO460146.1|CO460146
EST:     CAACATGGTGAGATTTTTTCAGGGCCGCG-ATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAAC
genomic: CAACATGGTGAGATTTTT-CAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAAC
EST: gi|32865912|gb|CF005594.1|CF005594
EST:     GCAACATGGTGAGATTTTTCAAGGCCGCGGATGGATCGTGGAGCCATGAG                         GTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
genomic: GCAACATGGTGAGATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAA
EST: gi|149005327|gb|EE039878.2|EE039878
EST:     ATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAG                         G-TGCTTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGA
genomic: ATTTTTCAAGACCGCGGATGGATCGTGGAGCCATGAGgtttgttcat ... gtgcttgcagGTTGC-TATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cacttaatgggcttgattttccaacttgcttacattcctattgctgtgcttgcagGTTGCTATCTCTGTGAAACCACTGAAGGTCCGCAACTGGATTCTGCCGGAAATGCCAGGATTGATAACTGATTTCGTCATCTCTCTTGATGACCGTTATC
                          tgcttac  putative branch site (score: 2)
            ttgatttt  TA-rich tract