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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtgagtttactacttatactgtcatgcaaccttggaattccccatatatcatatttcttgagcaatatttactgtgccaaaagtaataattctgagctttgcgcaatgccttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG

Basic information

species Glycine max
transcript GLYMA20G33080.1
intron # 19
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G33080.1 (Glycine max), 3'ss of exon 19
lower sequence: AT3G52200.1 (Arabidopsis thaliana), 3'ss of exon 19
gtgagtttactacttatactgtcatgcaaccttggaattccccatatatcatatttcttgagcaatatttactgtgccaaaagtaataattctgagctttgcgcaatgccttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG
  |  || |  | || ||  || ||  | | | | |       ||  ||||| |       | ||  ||| ||     |  || ||     |    ||||         | |  |||||||| |||||  ||||||||| |||||||||||| || || || || || ||||||||||||
--gtattcatcatttttaa-gttattaagcatagtacggaattatcaatcatgt-------gtaacttttcctacttaacgagaaa----accatactttat-------cgttttgcagCATATCAAATCTAGGAATGTATCCTGTGGATAATTTCTGCGCAATCATTAACCCCCCTCAG

upper sequence: GLYMA20G33080.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv13s0074g00150.t01 (Vitis vinifera), 3'ss of exon 19
gtgagtttactacttatactgtcatgcaaccttggaattccccatatatcatatttcttgagcaatatttactgtgccaaaagtaataattctgagctttgcgcaatgc--cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG
                    || |      |||  ||||||      ||  |||| ||||       | |  | ||  ||||| |   ||  | |  |||      |      | || ||||||||||||| | |||||||||||||| ||| | || ||||| ||||||||||| || |||
--------------------gtgaatgtgtcttataattccagtatgatactattacttg-------tgtcttttgttaaaagcagccatcataattttttttttttttaatcttatacagCATTTCAAACCTGGGAATGTTTCCTGTTGATCACTTCTGTGCAATTATAAACCCTCCACAG
















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|27426899|gb|CA938419.1|CA938419
EST:     GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
genomic: GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
EST: gi|8403681|gb|BE059377.1|BE059377
EST:     GCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
genomic: GCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
EST: gi|26058095|gb|CA801009.1|CA801009
EST:     GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTT
genomic: GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTT
EST: gi|6227678|gb|AW156277.1|AW156277
EST:     GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
genomic: GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
EST: gi|192310210|gb|FK000690.1|FK000690
EST:     GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
genomic: GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
EST: gi|51344360|gb|CO985093.1|CO985093
EST:     GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
genomic: GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
EST: gi|57575389|gb|CX548364.1|CX548364
EST:     GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
genomic: GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
EST: gi|209716666|gb|BW654299.1|BW654299
EST:     GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
genomic: GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
EST: gi|120532018|gb|EH260151.1|EH260151
EST:     GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
genomic: GCACGTGCTGGCAAATTGAAGCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
EST: gi|58023434|gb|CX710175.1|CX710175
EST:     CACGTGCTGGCAAA-TGNAAGCCACATGAATTCCAAGGGGGAACTTTTAG                         CATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA
genomic: CACGTGCTGGCAAATTG-AAGCCACATGAATTCCAAGGGGGAACTTTTAGgtgagtttac ... cttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

atatttactgtgccaaaagtaataattctgagctttgcgcaatgccttaatgcagCATTTCAAACTTAGGAATGTTTCCTGTGGATAAATTTTGTGCTATTATAAACCCCCCTCAG
                                            ccttaat  putative branch site (score: 4)
              aaaagtaataattct  TA-rich tract