Sequence
atgc intronic sequence ATGC exonic sequence...gtaacctgtgtattctagaatacttttgcactggttcacttttgatttcttgtttattaattgtttttcttaatctgacaaacattgccctttttagtagGTTGTAAATGGACTTCTTCAAAGAGAGGATTGGGATACGGCAATAAAGATGCCCCTTGGGGTAGTTCCTGCAG
Basic information
species | Glycine max |
transcript | GLYMA13G31980.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G31980.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G21540.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaacctgtgtattctagaatacttttgcac-tggttcacttttgatttcttgtttattaattgtttttcttaatctgacaaacattgccctttttagtagGTTGTAAATGGACTTCTTCAAAGAGAGGATTGGGATACGGCAATAAAGATGCCCCTTGGGGTAGTTCCTGCAG
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-ttgtttaattatatgtttactgttttgcttatgtttgactctgggattagaaaattattgtattggtagtgattcttaaaattggttcctaatttagtagGTTGTAAATGGACTGCTTGAAAGAGAAGACTGGAAGACTGCCATAAAATTGCCGATCGGAATGGTCCCTGCAG
upper sequence: GLYMA13G31980.1 (Glycine max), 3'ss of exon 3
lower sequence: AT4G21540.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaacctgtgtattctagaatacttttgcactggttcacttttgatttcttgtttattaattgtttttcttaat-------ctgacaaacattgccctttttagtagGTTGTAAATGGACTTCTTCAAAGAGAGGATTGGGATACGGCAATAAAGATGCCCCTTGGGGTAGTTCCTGCAG
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----ctcttgtttaattatatgtttactgttttgcttatgtttgactctgggattagaaaattattgtattggtagtgattcttaaaattggttcctaatttagTAGGTTGTAAATGGACTGCTTGAAAGAGAAGACTGGAAGACTGCCATAAAATTGCCGATCGGAATGGTCCCTGCAG
upper sequence: GLYMA13G31980.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv00s0181g00250.t01 (Vitis vinifera), 3'ss of exon 3
gtaacctgtgtattctagaatacttttgcactggttcacttttgattt---cttgtttattaattgtttttcttaatctgacaaacattgccctttttagtagGTTGTAAATGGACTTCTTCAAAGAGAGGATTGGGATACGGCAATAAAGATGCCCCTTGGGGTAGTTCCTGCAG
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--tcctcttatctgcctaaatctgtgtgttattactcaaccttgagttaggtgtgatttctgatc-cctttctctttcttataattttttcacattttagtagGTAGTAAATGGACTGCTTGAAAGAGATGATTGGGATTCTGCAATAAAGATGCCTATTGGGGTTATTCCTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttgtttattaattgtttttcttaatctgacaaacattgccctttttagtagGTTGTAAATGGACTTCTTCAAAGAGAGGATTGGGATACGGCAATAAAGATGCCCCTTGGGGTAGTTCCTGCAG
ttgcccttttt CT-rich tract
tgtttattaattgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaacctgtgtattctagaatacttttgcactggttcacttttgatttcttgtttattaattgtttttcttaatctgacaaacattgccctttttagtagGTTGTAAATGGACTTCTTCAAAGAGAGGATTGGGATACGGCAATAAAGATGCCCCTTGGGGTAGTTCCTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - cctgtgt
- - - - - - - - - - - - - tgcactg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tctgaca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - cattgcc