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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttgatacatttaaaatgacatgtttatgttctaagtttttctacagatttgaaaaaattaaattagataatgtagaaaaattgatgtttttaataatcagGGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAAAGCTTTGGCTGTGGTTGAATCTGGTCAGGGACGGAGTGAACTACTTGAT

Basic information

species Glycine max
transcript GLYMA11G19660.2
intron # 6
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA11G19660.2 (Glycine max), 3'ss of exon 6
lower sequence: LOC_Os04g11880.1 (Oryza sativa), 3'ss of exon 6
---------ttgatacatttaaaatgacatgtttatgttctaagtttttctacagatttgaaaaaattaaattagataatgtagaaaaattgatgtttttaataatcagGGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAAAGCTTTGGCTGTGGTTGAATCTGGTCAGGGACGGAGTGAACTACTTGAT
          |||    | || || ||||||   |  ||  |    ||||   | || |   |   ||| |||   |    |   | |||   || ||| ||  || || ||| ||||||| |||||||| ||||||||||| ||||| ||||||||||| || |||||||  |||||| | || || ||||| |  || || ||||||
tttgtgtttctgagctttctataaggacatggcaaaatttca----tttcagaaaatgttgtatctttatatt---tctactgatataatatgtgctttcaa--attagAGATGCTGAAGACCATATTTCTTGGCTTCTTCAACATGGTTGGCATGAAAAGGCATTGGCTGCAGTTGAAGCAGGACAAGGACGAACCGAGCTTCTTGAT

upper sequence: GLYMA11G19660.2 (Glycine max), 3'ss of exon 6
lower sequence: GRMZM2G040247_T01 (Zea mays), 3'ss of exon 6
-ttgatacatttaaaatgacatgtttatgttctaa--gtttttctacaga-tttgaaaaaattaaattagataatgtagaaaaattgatgtttttaataatcagGGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAAAGCTTTGGCTGTGGTTGAATCTGGTCAGGGACGGAGTGAACTACTTGAT
     ||| ||| |    |  |   |  ||| | |  ||  |    || | |||    |||   |||   || || ||  | | |       ||   | || || ||| |||||||||||||| | ||||||||||| ||||| || ||||||||||| |||||||  |||||  | || || ||||| | ||| || ||||||
tccattacctttcagtaaaagtaaat-cgttttgactgtcctgtggcaaaattttcccaaaaataatcccatgat-taatatagtgtgcaccttc--tgattagAGATGCTGAAGATCATATTGCTTGGCTTCTTCAACATGGTTGCCATGAAAAAGCATTGGCTGCAGTTGAGGCAGGGCAAGGACGCACTGAGCTTCTTGAT

upper sequence: GLYMA11G19660.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv06s0061g00940.t01 (Vitis vinifera), 3'ss of exon 6
ttgatacatttaaaatgacatgtttatgttctaagtttttctacagatttgaaaaa-attaaattagataatgtagaaaaattgatgtttttaataatc--agGGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAAAGCTTTGGCTGTGGTTGAATCTGGTCAGGGACGGAGTGAACTACTTGAT
 | |    |||    || | |  |  | ||| |   | || || | | | ||| |  |  ||||| | |    | || ||    |||  ||| || ||   |||||| ||||||||||||| || ||||| ||||| ||||||||||||||||||||||| || |  |||||| | || || || ||||||||||| ||||||
-taaggtgttttc--tgccgttatattcttcaatactattttaaaaaatagaatatcacaaaatttgtttgatttgagaagcaaatgcgttttatgattttagGGATGCTGAAGATCATATCTCTTGGCTCCTTCAACATGGGTGGCATGAAAAAGCTTTAGCAGCAGTTGAAGCAGGGCAAGGGCGGAGTGAACTCCTTGAT

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|6502313|gb|AW203686.1|AW203686
EST:     CCACTTTACTATATTGTATCTCTGAAGGATGTAGTTATTGCCAAACCAAG                         GGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAA
genomic: CCACTTTACTATATTGTATCTCTGAAGGATGTAGTTATTGCCAAACCAAGgttgatttca ... taataatcagGGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAA
EST: gi|10237520|gb|BE806408.1|BE806408
EST:     CCACTTTACTATATTGTATCTCTGAAGGATGTAGTTATTGCCAAACCAAG                         GGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAA
genomic: CCACTTTACTATATTGTATCTCTGAAGGATGTAGTTATTGCCAAACCAAGgttgatttca ... taataatcagGGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAA
EST: gi|151399580|gb|EV269451.1|EV269451
EST:     CCACTTTACTATATTGTATCTCTGAAGGATGTAGTTATTGCCAAACCAAG                         GGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAA
genomic: CCACTTTACTATATTGTATCTCTGAAGGATGTAGTTATTGCCAAACCAAGgttgatttca ... taataatcagGGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

gatttgaaaaaattaaattagataatgtagaaaaattgatgtttttaataatcagGGATACTGAAGATCATATTTCATGGCTTCTTCAGCATGGGTGGCATGAAAAAGCTTTGGCTGTGGTTGAATCTGGTCAGGGACGGAGTGAACTACTTGAT
                                          ttttaat  putative branch site (score: 3)
                                       tgttttt  CT-rich tract
      aaaaaattaaattaga  TA-rich tract