Sequence
atgc intronic sequence ATGC exonic sequence...attggtgtgtttgtgtgtgtctagtatacgcaaacacacattcactacataaaaattctgatcttactagttttgaagtatttgtattgtatttgtgcagTTACAAAGCATGGGGTTCTCTTTTAGGTCAACAGTTATCAGACAGAGATATCATTGTGGCATGCATAGATTACAG
Basic information
species | Glycine max |
transcript | GLYMA16G18930.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G18930.1 (Glycine max), 3'ss of exon 4
lower sequence: AT1G26120.1 (Arabidopsis thaliana), 3'ss of exon 4
attggtgtgtttgtgtgtgtctagtatacgcaaac--acacattcactacataaaaattctgatcttactagttttgaagtatttgtattgtatttgtgcagTTACAAAGCATGGGGTTCTCTTTTAGGTCAACAGTTATCAGACAGAGATATCATTGTGGCATGCATAGATTACAG
| || || | || | ||| || | | |||| | | | | | || || || || |||| || | |||||| || || ||||||||||| ||||| || || |||||||| |||||||| |||||||||||||| ||||||||
gtgagtatgatacccaatggacactattttcattctaaagcatttgaggacgaggagaaagaactgcaaatatcttacagaat--gtcttgtgttgatacagTTATAAGGCGTGGGGTTCTCTCTTAGGACAGCAATTATCAGAAAGAGATATTATTGTGGCATGCATTGATTACAG
upper sequence: GLYMA16G18930.1 (Glycine max), 3'ss of exon 4
lower sequence: Vv01s0011g02530.t01 (Vitis vinifera), 3'ss of exon 4
---attggtgtgtttgtgtgtgtctagtatacgcaaacacacattcactacataaaaattctgat-cttactagttttgaagtatttgtattgtatttgtgcagTTACAAAGCATGGGGTTCTCTTTTAGGTCAACAGTTATCAGACAGAGATATCATTGTGGCATGCATAGATTACAG
||| | | | | ||| | | | | | || || | | | || | | ||| || | | || |||||||| ||||||||||||||||||||||| |||||||||||||| ||||| ||||| ||||||||||||||||||||
tttattaattctatcataacttgctaaaaaaattagtttgcttcttgcgaccctaattacttattgccaaccaataatgagaagctt----tttgttgatgcagTTATAAAGCATGGGGTTCTCTTTTAGGGCAACAGTTATCAGAAAGAGACATCATAGTGGCATGCATAGATTACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacataaaaattctgatcttactagttttgaagtatttgtattgtatttgtgcagTTACAAAGCATGGGGTTCTCTTTTAGGTCAACAGTTATCAGACAGAGATATCATTGTGGCATGCATAGATTACAG
atcttac putative branch site (score: 3)
tatttgtattgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
attggtgtgtttgtgtgtgtctagtatacgcaaacacacattcactacataaaaattctgatcttactagttttgaagtatttgtattgtatttgtgcagTTACAAAGCATGGGGTTCTCTTTTAGGTCAACAGTTATCAGACAGAGATATCATTGTGGCATGCATAGATTACAG
- tggtgtg
- - - - - - gtgtgtg
- - - - - - - - - - - - - - - - -acacaca
- - - - - - - - - - - - - - - - - - - - - - - - ataaaaa