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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtacagtagtagaatttatgcatatttaatgacctcatatgtgtgtttgtatatttgtgttattaaaagttgactttcagGTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATACGTACCTCGTGAACAGTTGACCATCCCAGATTTTGTGTTTCA

Basic information

species Glycine max
transcript GLYMA20G03330.1
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G03330.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM2G100707_T01 (Zea mays), 3'ss of exon 12
gtacagtagtagaatttatgcatatttaatgacctcatatgtgtgtttgtatatttg----tgttattaaaagttgactt--tcagGTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATACGTACCTCGTGAACAGTTGACCATCCCAGATTTTGTGTTTCA
     ||| |    ||   ||  |   ||  || |  | ||||    |   |  |||    |  | ||     |||  |   | |||| ||||||||||| |||||||| ||  | ||| ||||||| |||||||| ||||| ||||||||| | ||||| || ||||||||||| ||
-----gtactcaccttgcagctaaaccaaaaacattctttgtgctgctccgtgcttgaaatttctgttttggtttgtttcaattagGTCTGGAAGAAAGTTGTATATGTCGACAGACTTGTGCAGCTATTCAGATATGTACCACGTGAACAGCTCACCATTCCTGATTTTGTGTTCCA

upper sequence: GLYMA20G03330.1 (Glycine max), 3'ss of exon 13
lower sequence: GRMZM5G836588_T01 (Zea mays), 3'ss of exon 12
gtacagtagtagaatttatgcatatttaatgacctcatatgtgtgttt-gtatatttgtgttattaaaagttgactttcagGTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATACGTACCTCGTGAACAGTTGACCATCCCAGATTTTGTGTTTCA
              |   | |   || |   |  || |   |||| ||  |    |  |   ||      ||    |  |||| ||||||||||| |||||||| ||| | ||| ||||||| |||||||| ||||| || || ||  | || || || || ||||| |||||
-------------gtacctcctagttcagacatttcttcactgtgcttcatgagatcttagcatccttttttcctctatagGTCTGGAAGAAAGTTGTATATGTGGATAGGCTTGTGCAGCTGTTCAGATATGTACCACGCGAGCAACTTACAATTCCTGACTTTGTTTTTCA

upper sequence: GLYMA20G03330.1 (Glycine max), 3'ss of exon 13
lower sequence: AT1G69340.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------gtacagtagtagaatttatgcatatttaatgacctcatatgtgtgtttgtatatttgtgttatt---aaaagttgactttcagGTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATACGTACCTCGTGAACAGTTGACCATCCCAGATTTTGTGTTTCA
                                   | |     |||| |  |  ||| | ||| ||  ||  || ||   |  | |  ||||   |||   |||| |   |  | |||| ||||||||||| |||||||  || || ||||||||||| |||| |||||| |||||||| ||| |||| |||||||| ||||| || ||
gtaaagtcctgaattatttcaaagtcccaaccttttccgccgatagactcgagtcat-tctaaagaagtctaatttgctgtcattttcttgttccatttcgaaaaatc--cgataagGTATGGAAGAAAGTTGTATATGCAGACCGACTTCTGCAGCTGTTCAAATACGTTCCTCGTGAGCAGCTGACAATCCCAGACTTTGTTTTCCA

upper sequence: GLYMA20G03330.1 (Glycine max), 3'ss of exon 13
lower sequence: Vv01s0011g00870.t01 (Vitis vinifera), 3'ss of exon 12
------------gtacagtagtagaatttatgcatatttaatgacctcat--atgtgtgtttgtatatttgt----------gttattaaaagttgactttcagGTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATACGTACCTCGTGAACAGTTGACCATCCCAGATTTTGTGTTTCA
            |||   |  | ||    |||  ||| |  |||||||    |  | |||||| |   || |           || ||   |  ||   |  |||| ||||||||||||||||||||||| || ||  ||||||| ||||||||||| || ||||| |||||||| ||||| || |||||||||||
gtaagtccaaaagtatcctccttgaccaaatgattatatcctgacctctgtgacttctgtttgaaagcttattgtaagtgaaattgttgggaaatggtctctagGTGTGGAAGAAAGTGGTATATGTTGACCGACTCATGCAGCTGTTCAGATACGTTCCACGTGAGCAGTTGACAATCCCCGACTTTGTGTTTCA

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|209714625|gb|BW654138.1|BW654138
EST:     TCGGACTAAAAGCGGCAGTATTTGGACTTCAGATGTTTGTGGACAATGTG                         GTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATAC
genomic: TCGGACTAAAAGCGGCAGTATTTGGACTTCAGATGTTTGTGGACAATGTGgtacagtagt ... tgactttcagGTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATAC
EST: gi|6482215|gb|AW201486.1|AW201486
EST:     TCGGACTAAAAGCGGCAGTATTTGGACTTCAGATGTTTGTGGACAATGTG                         GTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTGCAGATAC
genomic: TCGGACTAAAAGCGGCAGTATTTGGACTTCAGATGTTTGTGGACAATGTGgtacagtagt ... tgactttcagGTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATAC
EST: gi|22524022|gb|BU082833.1|BU082833
EST:     TCGGACTAAAAGCGGCAGTATTTGGACTTCAGATGTTTGTGGACAATGTG                         GTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATAC
genomic: TCGGACTAAAAGCGGCAGTATTTGGACTTCAGATGTTTGTGGACAATGTGgtacagtagt ... tgactttcagGTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATAC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttaatgacctcatatgtgtgtttgtatatttgtgttattaaaagttgactttcagGTTTGGAAGAAAGTGGTATATGTTGATCGCCTTCTGCAGCTCTTCAGATACGTACCTCGTGAACAGTTGACCATCCCAGATTTTGTGTTTCA
                                          agttgac  putative branch site (score: 4)
                                                ctttc  CT-rich tract
                    tttgtatatttgtgtt  TA-rich tract