Sequence
atgc intronic sequence ATGC exonic sequence...tcttggcatttatttaagaaagtgtaagtagtaaagcttaatgatatcttccccttaatcaatagtgaaaattaatttagcattgtgtctgattttgcagACATTCAATGGGAAGAAATGGGAGAAATTTAATAGTGAAAAAGTTGCATCTTTGGCATATGCTCGAATTCAAGGAAAATCTGCCCTTGTGAGCCACTTCC
Basic information
species | Glycine max |
transcript | GLYMA09G11630.1 |
intron # | 9 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA09G11630.1 (Glycine max), 3'ss of exon 9
lower sequence: Vv10s0003g02670.t01 (Vitis vinifera), 3'ss of exon 11
tcttggcat--ttatttaagaaagtgtaagtagtaaagcttaatgatatcttccccttaatcaa-tagtgaaaattaatttagcattgtgtctgattt-tgcagACATTCAATGGGAAGAAATGGGAGAAATTTAATAGTGAAAAAGTTGCATCTTTGGCATATGCTCGAATTCAAGGAAAATCTGCCCTTGTGAGCCACTTCC
| | |||| || | | ||| ||| | | | | | | || | | || || || | || ||| |||| ||| |||| ||||| | || ||||| ||||| ||||||||||| |||||||| |||||||| || |||||||||||| |||| || ||||| ||||||| || | || ||||
ttctagcatcattcctcatgaacagaaaagaaagacacttcactaatgaatacttgaagataaagctgtattatctacttt----ttgtttctaatttatgcagGCTTTTAATGGTAAGAAGTGGGAGAAATTCAATAGTGAGAAAGTTGCTTCCTTGGCATATGCTAGAATCCAGGGAAAGGCTGCCCTAGTCACACATTTCC
upper sequence: GLYMA09G11630.1 (Glycine max), 3'ss of exon 9
lower sequence: EFJ29693 (Selaginella moellendorffii), 3'ss of exon 10
tcttggcatttatttaagaaagtgtaagtagtaaagcttaatgatatcttccccttaatcaatagtgaaaattaatttagcattgtgtctgattttgcagACATTCAATGGGAAGAAATGGGAGAAATTTAATAGTGAAAAAGTTGCATCTTTGGCATATGCTCGAATTCAAGGAAAATCTGCCCTTGTGAGCCACTTCC
| || | | | ||| | | | | | ||| ||| || ||||| |||||||| ||||| ||||||||||| || || || || ||||| ||| |||| || |||||||| ||||| || |||||| || || ||||
-----------------------------------gtttgacaccgttgttttcttcgt-----gcgcattctcatt----------ctcgatcttacagACCTTCAATGGAAAGAAGTGGGAGAAATTCAACAGCGAGAAGGTTGCTTCTCTGGCTTACGCTCGAATACAAGGCAAGGTTGCCCTCGTCGCACATTTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atcttccccttaatcaatagtgaaaattaatttagcattgtgtctgattttgcagACATTCAATGGGAAGAAATGGGAGAAATTTAATAGTGAAAAAGTTGCATCTTTGGCATATGCTCGAATTCAAGGAAAATCTGCCCTTGTGAGCCACTTCC
ttaatcaatagtgaaa TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcttggcatttatttaagaaagtgtaagtagtaaagcttaatgatatcttccccttaatcaatagtgaaaattaatttagcattgtgtctgattttgcagACATTCAATGGGAAGAAATGGGAGAAATTTAATAGTGAAAAAGTTGCATCTTTGGCATATGCTCGAATTCAAGGAAAATCTGCCCTTGTGAGCCACTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - ggcattt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaattaa