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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...acagatcatgaaaatatttgtactttagagtttgattgttatttttactggctgagttttaagttatcttcaagatttctgattaaccttgtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAAAAAGACAGCAT

Basic information

species Glycine max
transcript GLYMA08G09170.2
intron # 12
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G044629_T01 (Zea mays), 3'ss of exon 11
acagatcatgaaaatatttgtactttagagtttgattgttatttttactggctgagttttaagttatcttcaagatttctgattaaccttgtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAAAAAGACAGCAT
                | ||   | ||   || | || |  || |   | ||      |  |   |    |  | | |||  ||    || |  ||  || ||||| | ||||||||||||||||| ||  ||||||||||||||||  ||||||| || |||||  |
---------------gtatg-gttctatccttcgcttctcgttctctttcgccctccctccatccaaaaact-gttctctccttttttttttttttgtagATCTGCCTGCACATGTTCACTCTGGACTTCTTGAACCAAGTGGCAAACAGCCTTGAGAAGGACAGTGT

upper sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 12
lower sequence: GRMZM2G155729_T01 (Zea mays), 3'ss of exon 11
acagatcatgaaaatatttgtactttagagtttgattgttatttttactggctgagttttaagttatcttcaagatttctgattaaccttgtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAAAAAGACAGCAT
                         || | ||            |  |   ||   |  ||  |   | | || | || ||  |  | ||    |   || ||||||| || ||||| ||| |||||||||||||||||||| ||||  | |||||||| || |||||
------------------------gtataattcctacacctgcctcccctcctatatactatataggcattaacaattgtgtatttcttttatgtcatagATCTGCTTGCATATGTTTACTTTGGATTTTCTGAACCAAGTGACAAACAGTCTTGAAAAGGATAGCAT

upper sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 12
lower sequence: AT2G35020.1 (Arabidopsis thaliana), 3'ss of exon 11
----------------------------------------------------------------------------------acagatcatgaaaat-attt---gtactttagagtttgattgttatttttactggc------tgagttttaagttatcttcaagatttctgattaaccttgtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAAAAAGACAGCAT
                                                                                   ||  | |      | ||||    || |||  ||     |   | |||||   |        || |||| |||||         | |    |   |  ||    |||||||| |||||||||||||||||||||||||| || |||||||| || ||||| || |||||||||||| |
gtaaactcctccctctttataagttttcgaagttatacttagatcattatttccggtactattgcgattgttccatttttgtgcaacttagattgcttatttcaaatatttttaaggacagtgagtgtttttgtggaaaaggcatgtgtttaaagttcataatgtaagtcgaaaacgatgtttacttttcagGTGTGCTTACACATGTTCACTCTGGATTTCCTTAACCAAGTTGCGAATGGGCTGGAAAAAGACAGCGT

upper sequence: GLYMA08G09170.2 (Glycine max), 3'ss of exon 12
lower sequence: Vv01s0011g01420.t01 (Vitis vinifera), 3'ss of exon 11
acagatcatgaaaatatttgt---actttagagtttgattgttatttttactggctgagttttaagttatcttcaagatttc-tgattaaccttgtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAAAAAGACAGCAT
      | |  || | |  ||   | || | | |   | || ||||     ||  |   || || | | | ||     ||   |  ||    |     |||||||| |||||||| ||||| |||||||||||||||||||||||||||||||||||||| |||||||||||
----gcctttcaattttcagtgttatttaatattcaaaatggtattaaggatgatttgattatatgctttgttttcttttcaatagtttgtttctgcttttcagGTGTGCTTACATATGTTTACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAGAAAGACAGCAT

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|208191545|gb|GD992781.1|GD992781
EST:     TTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
genomic: TTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|254342038|gb|GR853175.1|GR853175
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|4313957|gb|AI461076.1|AI461076
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAATCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|208215335|gb|GE011090.1|GE011090
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|298176684|gb|HO026805.1|HO026805
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|151397105|gb|EV266978.1|EV266978
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAATCAAGTGGCAAATGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC
EST: gi|254329705|gb|GR839258.1|GR839258
EST:     CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAAT                         GTCTGCTTACACATGTTCACTCTGGATTTTCTGAATCAAGTGGCAA-TGGC
genomic: CTTCTGCAGTCAATCAAGCAACTGGCCGTCTTCGTTTTTGTTGGAGTAATgttagtctat ... gtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGC


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tactggctgagttttaagttatcttcaagatttctgattaaccttgtgatttcagGTCTGCTTACACATGTTCACTCTGGATTTTCTGAACCAAGTGGCAAATGGCCTTGAAAAAGACAGCAT
                                   gattaac  putative branch site (score: 2)
           ttttaagttatctt  TA-rich tract