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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaataacatttttgttgtaattttgatatttcattaagatattaacatgattctcatagtgactatcaaatcataatatgctttaaattatttccccagAGGCACATAAATCTTGCTCAGCATCTATCAACATTCACATCAAAGCCTTCATTTCTTGGGCAACTTGATATGGAACATACAATTGTAGAGGCCCAGAGTT

Basic information

species Glycine max
transcript GLYMA10G35210.2
intron # 13
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA10G35210.2 (Glycine max), 3'ss of exon 13
lower sequence: AT3G54860.1 (Arabidopsis thaliana), 3'ss of exon 13
----gtaataacatttttgttgtaattttgatatttcattaagatattaacatgattctcatagtgactatcaaatca---taatatgctttaaattatt--tccccagAGGCACATAAATCTTGCTCAGCATCTATCAACATTCACATCAAAGCCTTCATTTCTTGGGCAACTTGATATGGAACATACAATTGTAGAGGCCCAGAGTT
    ||| | || |  ||  | ||  ||   | | | || |   |   ||| |     ||| | |   |  ||  | |   ||||  | | | | || ||  | |||||||||||||| ||||||| ||||| ||| | || |||||||| ||||  ||||||  |   ||||||||||||||||| ||| |||| |||||  | | ||
gtaagtattgacttgattactatatgttccttttcttat-atattgcaaacgttcagatcaaaatttgttccagtttaacttaattggttatgattttttctttcccagAGGCACATACATCTTGCCCAGCACCTAACGACGTTCACATCCAAGCAATCATTTAATTCTCAACTTGATATGGAACAAACACTTGTTGAGGCAGAAAATT

upper sequence: GLYMA10G35210.2 (Glycine max), 3'ss of exon 13
lower sequence: Vv13s0019g04720.t01 (Vitis vinifera), 3'ss of exon 13
gtaataacatttttgttgtaattttgatattt-cattaagat--attaacatgattctcatagtgactatcaaatcataatatgctttaaattatttccccagAGGCACATAAATCTTGCTCAGCATCTATCAACATTCACATCAAAGCCTTCATTTCTTGGGCAACTTGATATGGAACATACAATTGTAGAGGCCCAGAGTT
            |   | |  | || |||||| || |||  |   |  |  || |||| |  |    || |||   ||||| ||||    ||| || |   |||||||||||||||||||||||||||| ||  | || ||||||||||| || |||||||| | |||||| |||||||| |||||||||||||| |||||||
-----------gtaagtatgttctttatatttacaataaactttgtctaagtggttctgaatggagttaccaa-ctataatttgctgctgattgttgctgtagAGGCACATAAATCTTGCTCAGCATCTGTCTGCCTTTACATCAAAGCCATCCTTTCTTGGACGACTTGACATGGAACACACAATTGTAGAGGCTCAGAGTT
















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|207780159|gb|GD753088.1|GD753088
EST:     CCGAGTTGAAGGACTTTGTGAAAAAGCTGAACTCATTGCCAGAGATGACC                         AGGCACATAAATCTTGCTCAGCATCTATCAACATTCACATCAAAGCCTTCA
genomic: CCGAGTTGAAGGACTTTGTGAAAAAGCTGAACTCATTGCCAGAGATGACCgtaataacat ... atttccccagAGGCACATAAATCTTGCTCAGCATCTATCAACATTCACATCAAAGCCTTCA
EST: gi|193322483|gb|FK289433.1|FK289433
EST:     CCGAGTTGAAGGACTTTGTGAAAAAGCTGAACCCATTGCCAGAGATGACC                         AGGCACATAAATCTTGCTCAGCATCTATCAACATTCACATCAAAGCCTTNA
genomic: CCGAGTTGAAGGACTTTGTGAAAAAGCTGAACTCATTGCCAGAGATGACCgtaataacat ... atttccccagAGGCACATAAATCTTGCTCAGCATCTATCAACATTCACATCAAAGCCTTCA
EST: gi|207757763|gb|GD730609.1|GD730609
EST:     CCGAGTTGAAGGACTTTGTGAAAAAGCTGAACTCATTGCCAGAGATGACC                         AGGCACATAAAT
genomic: CCGAGTTGAAGGACTTTGTGAAAAAGCTGAACTCATTGCCAGAGATGACCgtaataacat ... atttccccagAGGCACATAAAT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

acatgattctcatagtgactatcaaatcataatatgctttaaattatttccccagAGGCACATAAATCTTGCTCAGCATCTATCAACATTCACATCAAAGCCTTCATTTCTTGGGCAACTTGATATGGAACATACAATTGTAGAGGCCCAGAGTT
 tattaac  putative branch site (score: 1)
                                           ttatttcccc  putative PPT
                   tatcaaatcataatat  TA-rich tract