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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...ttggttctccaatgttagaaattggaattagaatcattttgattttataaatacttttctttttacttatgcttctatttatttttgtttaacttcatagATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACTAACGCAG

Basic information

species Glycine max
transcript GLYMA0048S00290.2
intron # 3
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 3
lower sequence: AT3G19980.1 (Arabidopsis thaliana), 3'ss of exon 3
ttggttctccaatgttagaaattggaattagaatcattttgattttata-aatacttttctttttac---ttatgcttctat-ttatttttgtttaacttcatagATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACTAACGCAG
    |  ||| | || |   |||| | | | ||| | |   |      |  ||| | ||  |||  |   | ||| |||| | || ||| | ||  | |   |||||| ||||| |||||||| ||| | || ||||| ||||||||||| || |||||||||
----tagtccca-gtaacgtattgcattcaaaattagtccaaacgagaatgatattgtttctttagcatctcatgtttctctgttctttgtattctaatatgtagATATCCAGCCAATATTACACTTTTGCGCGGAAATCATGAAAGTAGGCAGCTAACGCAG

upper sequence: GLYMA0048S00290.2 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0071g00950.t01 (Vitis vinifera), 3'ss of exon 3
--ttggttctccaatgttagaaa-ttggaattagaatcattttgattttataaatacttttctttttacttatgcttctatttatttttgtttaacttcatagATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACTAACGCAG
   ||| ||| |||||  |   | ||    |||  ||| ||   || ||   | ||  |  ||    | |    | | |  || ||| || ||    ||||||||| || ||||||||||| ||| | |||||||| ||||| ||||||||||| || |||
atatggctctacaatggaatttacttatgcttaccatc-ttcaaatctttatattatgtacctggagattctgacattttcttttttgtgcttg--ctcatagATATCCGGCTAATATTACTCTTTTGCGTGGAAATCATGAGAGTAGACAACTTACTCAG
















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|193398959|gb|FK363859.1|FK363859
EST:     GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAG                         ATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGA
genomic: GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAGgtatgttgtt ... aacttcatagATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGA
EST: gi|254340656|gb|GR854384.1|GR854384
EST:     GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAG                         ATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACT
genomic: GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAGgtatgttgtt ... aacttcatagATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACT
EST: gi|193578884|gb|FK536690.1|FK536690
EST:     GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAG                         ATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACT
genomic: GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAGgtatgttgtt ... aacttcatagATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACT
EST: gi|208275394|gb|GE079386.1|GE079386
EST:     GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAG                         ATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAA
genomic: GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAGgtatgttgtt ... aacttcatagATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAA
EST: gi|193307179|gb|FK271075.1|FK271075
EST:     GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAG                         ATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACT
genomic: GGTTACAATAGTCTTGAAGTATTCACCATCCTTTTACTTCTAAAAGCTAGgtatgttgtt ... aacttcatagATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tataaatacttttctttttacttatgcttctatttatttttgtttaacttcatagATACCCAGCTAATATTACCCTTCTACGTGGAAACCATGAAAGTAGACAACTAACGCAG
                                         gtttaac  putative branch site (score: 3)
              tttttacttatgcttc  TA-rich tract