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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

...actcatcttacaatatccaataaattgatttcactttgcccccctccctctttactgacagaatgtttcttgttctaaccttcagattttgtctcatcagGTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCTCCAGAACTTATATTTGGCGCCACAGAGTATACAAGTTCAATTGATATTT

Basic information

species Glycine max
transcript GLYMA13G30060.3
intron # 5
splice site 3'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: GLYMA13G30060.2 (Glycine max), 3'ss of exon 6
lower sequence: AT4G18710.1 (Arabidopsis thaliana), 3'ss of exon 5
-actcatcttacaatatccaataaattgatttcactttgcccccctccctctttactgacagaatgtttcttgttctaaccttcagattttgtctcatcagGTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCTCCAGAACTTATATTTGGCGCCACAGAGTATACAAGTTCAATTGATATTT
     |  ||   | ||   ||||| | |||  |||| |   |  |   | ||| |||  |   |||   ||  | |     |    |||||  |||   ||| ||||||||||| || || || ||||| || ||||||||||| || || || || || |||||||| ||||| ||||| |||| ||| |||||||| |
gtaagactttgtgacat---ataaactcattcgactt-gtagcggttgttgttttctgtgatcttgtcatttactgttgaaatttacttttgcttca---gGTTAAAGGTGAAGCCAACATTTCTTACATCTGCTCACGATTCTACCGTGCACCCGAGCTCATATTTGGTGCCACTGAGTACACAACTTCTATTGATATCT

upper sequence: GLYMA13G30060.2 (Glycine max), 3'ss of exon 6
lower sequence: Vv10s0003g01480.t01 (Vitis vinifera), 3'ss of exon 6
--actcatctta--caatatccaataaattgatttcactttgcccccctccctctttactgacagaatgtttcttgttctaaccttcagattttgtctcatcagGTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCTCCAGAACTTATATTTGGCGCCACAGAGTATACAAGTTCAATTGATATTT
    ||||  ||  || ||  || ||    ||     ||||||     |     ||   |||    || |||| |||| | ||| | |       | ||||||||| ||||||||||| || ||||||||||||||||| || ||||| || || || ||||| |||||||| ||||||||||||||||  ||||||||||| |
tctttcatggtagtcagtactcagtaggaagaaagt-ctttgcttgttttttctttctatgat---atctttcatgttttcaccatgaatccaattttcatcagGTTAAAGGTGAAGCAAACATATCATACATATGTTCTCGTTTCTACCGAGCACCTGAACTCATATTTGGGGCCACAGAGTATACAACCTCAATTGATATAT
















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|193332468|gb|FK301614.1|FK301614
EST:     CTCTTACACACCAAGTGAAGCTATGTGA-TTTGGAAGTGCAAAAGTTCTA                         GTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCT
genomic: CTCTTACACACCAAGTGAAGCTATGTGATTTTGGAAGTGCAAAAGTTCTAgtaggtctta ... gtctcatcagGTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCT
EST: gi|193486814|gb|FK449205.1|FK449205
EST:     CTCTTACACACCAAGTGAAGCTATGTGATTTTGGAAGTGCAAAAGTTCTA                         GTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCT
genomic: CTCTTACACACCAAGTGAAGCTATGTGATTTTGGAAGTGCAAAAGTTCTAgtaggtctta ... gtctcatcagGTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCT
EST: gi|10231698|gb|BE800586.1|BE800586
EST:     CTCTTACACACCAAGTGAAGCTATGTGATTNTGGAAGTGCAAAAGTTCTA                         GTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCT
genomic: CTCTTACACACCAAGTGAAGCTATGTGATTTTGGAAGTGCAAAAGTTCTAgtaggtctta ... gtctcatcagGTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCT


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ccctctttactgacagaatgtttcttgttctaaccttcagattttgtctcatcagGTAAAAGGTGAAGCTAATATATCATACATATGTTCACGATTCTATCGCGCTCCAGAACTTATATTTGGCGCCACAGAGTATACAAGTTCAATTGATATTT
                           ttctaac  putative branch site (score: 1)
                                         ttttgtctc  putative PPT
                aatgttt  TA-rich tract