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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtcagcctgcttaggaatttaatgttggtttgtttttgtagttattaatacatagaataagtgaggttttactctgttggttgctttttatatctcattctaatgaaagattcattctccatctctgtatgtctttctcctttgtctcacagTCTCTGCTTCCAGATTACCAGCGGCTACTGAGTTCTGTGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGTG

Basic information

species Glycine max
transcript GLYMA20G36180.1
intron # 7
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA20G36180.1 (Glycine max), 3'ss of exon 7
lower sequence: AT2G40730.1 (Arabidopsis thaliana), 3'ss of exon 7
gtcagcctgcttaggaatttaatgttggtttgtttttgtagttattaatacatagaataagtgaggttttactctgttggttgctttttatatctcattctaatgaaagattcattctccatctctgtatgtctttctcctttgtctcacagTCTCTGCTTCCAGATTACCAGCGGCTACTGAGTTCTGTGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGTG
                                             |  | |    ||    ||| || ||||| | ||   ||   ||| |||  | ||  | |  ||||       |  || || || ||  ||| || ||  ||||||||||||||||||||||||| ||||| || || |||||  |||| ||||| ||||| || || ||||| ||| |||||||  | |
---------------------------------------------tgtttccccaaagttttgatgtgttacttt-ttatctg---tttgtatgactttgaattctaagagctggctttgatttcggt-tgaatttttcttt--tctcacagTCTCTGCTTCCAGATTATCAGCGACTCCTAAGTTCCATGCCTTCTCGCAGATTGAACACCTCAAAACTTCTAGAAAATGGCG

upper sequence: GLYMA20G36180.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0067g03110.t01 (Vitis vinifera), 3'ss of exon 7
--------------------------------------gtcagcctgcttaggaatttaatgttggtttgtttttgtagttattaatacatagaataag---tgaggttttactctgttggttgctttttatatctcattctaatgaaagattcattctccatctctgtatgtctttctcctttgtctcacagTCTCTGCTTCCAGATTACCAGCGGCTACTGAGTTCTGTGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGTG
                                       |  |||   |      ||   | |   |||| |||   | || |     ||| || |      | | || |     |||  ||     ||||  |||||  ||  ||||| ||||||| | ||| |   | ||||| | | ||| |||||||||||||| ||||||||||| ||||||||  |||||||  ||||  |||| || || || ||||| |||||||||||||| ||||
gtcagtttttaattgtttgggatggatcattgattgcaattggccctttctccggttc--tatcactttgcttt---acttttcctctcatggagttgccttttatgtatgtgcatgtgtgtcatggtttacttctcaagcttttgaaaaattcatt-ttcatttgcatctgtctattttctt-gtctcacagTCTCTACTTCCAGATTATCAGCGGCTCTTGAGTTCCATGCCTGCTCGCAGGTTGAACACATCGAAGCTTATAGAAAATAGTG
















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|37997477|gb|CF809066.1|CF809066
EST:     TGAAGTTGGGCAAAACAGAGGAGTTACGCAACACTGTCTCCATTCCCAAG                         TCTCTGCTTCCAGATTACCAGCGGCTACTGAGTTCTGTGCCCTCTCGTAGA
genomic: TGAAGTTGGGCAAAACAGAGGAGTTACGCAACACTGTCTCCATTCCCAAGgtcagcctgc ... tgtctcacagTCTCTGCTTCCAGATTACCAGCGGCTACTGAGTTCTGTGCCCTCTCGTAGA






















 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttctaatgaaagattcattctccatctctgtatgtctttctcctttgtctcacagTCTCTGCTTCCAGATTACCAGCGGCTACTGAGTTCTGTGCCCTCTCGTAGATTAAATACATCAAAGCTTATAGAAAACAGTG
 ttctaat  putative branch site (score: 2)
                 ttctccatctctgtat  putative PPT
        aaagatt  TA-rich tract