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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...tcaatttatgatgcattgtatagatcctgctatgttggcagtttacattcgttttactggttgaacatcctttcaacattttcttttaatttggtttcagAGATTGGCATCAGGTGAATGGTTCACTGCTCGAGTGTCTTCATGTGGACTATTTCATATTGCTTACCCTAGCGCACCTGAAATGTCAAAGATAGAATTGA

Basic information

species Glycine max
transcript GLYMA02G10790.2
intron # 2
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 2
lower sequence: GRMZM2G102858_T01 (Zea mays), 3'ss of exon 2
tcaatttatgatgcattgtatagatcctgc-tatgttggcagtttacattcgttttac-tggttgaacatcctttcaacattttct--tttaatttggtt---tcagAGATTGGCATCAGGTGAATGGTTCACTGCTCGAGTGTCTTCATGTGGACTATTTCATATTGCTTACCCTAGCGCACCTGAAATGTCAAAGATAGAATTGA
      ||| |   |  | | ||  | ||  ||||| || |||  |  | |||| ||| | |||  | ||| |||    |||  ||      | ||| |    |||||| |||||   |||||| ||||| || |||||||| ||||||||||| || |||||||| || || ||||| |||||||||      |||  |||| |||
------tataacaaac-gcaaagcacttgtgtatgtgggaagtacaattacgttctacattgttctatatcatttagcaattaactggacatacttgatcaactcagAGGTTGGCGGTAGGTGAGTGGTTTACAGCTCGAGTTTCTTCATGTGGCCTTTTTCATATCGCCTATCCTAGTGCACCTGAACAACTGAAGGCAGAACTGA

upper sequence: GLYMA02G10790.2 (Glycine max), 3'ss of exon 2
lower sequence: Vv01s0011g03280.t01 (Vitis vinifera), 3'ss of exon 1
------tcaatttatgatgcattgtat-agatcctgctatgttggcagtttacattcgttttactggttgaacatcctttcaacattttcttttaatttggt-ttcagAGATTGGCATCAGGTGAATGGTTCACTGCTCGAGTGTCTTCATGTGGACTATTTCATATTGCTTACCCTAGCGCACCTGAAATGTCAAAGATAGAATTGA
      ||| ||    ||  | ||| | ||    |  | ||| |  |   ||   ||||||  |  |      ||| ||| |  ||  | | ||| | | || |||||||| ||||||| ||||||||||| ||||||||||| ||| |||||||||| ||||||||||||||||| || || || || |||| |||||| || ||| 
gcatattcatttacctatataatgtgttaggggtttttgtgtagttaa--tattgtcgtttcgcctg------atcttttgactatcatttattattcttgtattcagAGACTGGCATCTGGTGAATGGTTTACTGCTCGAGTTTCTGCATGTGGACTGTTTCATATTGCTTACCCAAGTGCCCCAGAGATGTTAAAGATGGAGTTGC
















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|209719685|gb|BW651059.1|BW651059
EST:     TGCAAATGAGGGAGAGTGATTTGGTTGAGTATTTCATCCCTTTAGTGAAG                         AGATTGGCATCAGGTGAATGGTTCACTGCTCGAGTGTCTTCATGTGGACTA
genomic: TGCAAATGAGGGAGAGTGATTTGGTTGAGTATTTCATCCCTTTAGTGAAGgtcagattat ... ttggtttcagAGATTGGCATCAGGTGAATGGTTCACTGCTCGAGTGTCTTCATGTGGACTA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

cattcgttttactggttgaacatcctttcaacattttcttttaatttggtttcagAGATTGGCATCAGGTGAATGGTTCACTGCTCGAGTGTCTTCATGTGGACTATTTCATATTGCTTACCCTAGCGCACCTGAAATGTCAAAGATAGAATTGA
                                      ttttaat  putative branch site (score: 3)
                                 ttttcttttaattt  CT-rich tract
                         tttcaacattttcttt  TA-rich tract