Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgataaaatgacccttgattgaataactggcattggcatgacattgtttaggcatataaagaatttttctatgttgtactttgtctaacgtttctaatggagtactgcaacctgattaatctttctaacacatagGTCACTTGGTCAAACATCTCCAAGCCTAAATGCATTCGCAGCAGGCCAAGCAGCAGCTTATAAGATGTTTGAGACAATTGCACGAAAGCCAAAAATTGAT
Basic information
species | Glycine max |
transcript | GLYMA15G09680.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA15G09680.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g02540.t01 (Vitis vinifera), 3'ss of exon 5
--------------------------------------------gtaagtgataaaatgaccct--tgattgaataactggc--attggcatgacattgtttaggcatataaagaatttttctatgttgtactttgtctaacgtttctaatggagtactgcaacctgattaatcttt-ctaacacat-----------agGTCACTTGGTCAAACATCTCCAAGCCTAAATGCATTCGCAGCAGGCCAAGCAGCAGCTTATAAGATGTTTGAGACAATTGCACGAAAGCCAAAAATTGAT
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gtaagtagagcgttacattgattttaggaatgactattttgtgactgaaacataagtttaccctctttgttgctttgttgatcaatagttgtggcaatatcatcactaaatttaaacatccaaatttaatatcct-cctgattaatgtattgatgcgtgaccacctctcttacctttgtttgcaaatgttcttggactagGTCGTTGGGCCAAACATCCCCATGCTTGAATGCATTTGCAGCAGGACAAGCTGCAGCATATAAGATGTTTGAGACTATCAAACGAAAACCACAAATTGAT
upper sequence: GLYMA15G09680.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g02580.t01 (Vitis vinifera), 3'ss of exon 5
gtaagtgataaaatgacccttgattgaataactggcattggcatgacattgtttaggcatataaagaatttttctatgttgtactttgtctaacgtttctaatggagtactgcaacctgattaatctttctaacacatagGTCACTTGGTCAAACATCTCCAAGCCTAAATGCATTCGCAGCAGGCCAAGCAGCAGCTTATAAGATGTTTGAGACAATTGCACGAAAGCCAAAAATTGAT
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gtaagt-atagtatcaaaat-gatttggtgaatcaca----------gttattttgtcaccatgaacagcttactat----caaattgagtattactcatatcaatgtattaatacttga---gatggtctccggtatagGTCATTGGGCCAGGCATCCCCATGTCTAAGTGCTTTTACAGCAGGGCAGGCAGCAGCATATAAGATGTTTGAGACAATCAAACGGAAACCAAAAATTGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgtctaacgtttctaatggagtactgcaacctgattaatctttctaacacatagGTCACTTGGTCAAACATCTCCAAGCCTAAATGCATTCGCAGCAGGCCAAGCAGCAGCTTATAAGATGTTTGAGACAATTGCACGAAAGCCAAAAATTGAT
ttctaac putative branch site (score: 1)
tctttct CT-rich tract
attaatctttctaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgataaaatgacccttgattgaataactggcattggcatgacattgtttaggcatataaagaatttttctatgttgtactttgtctaacgtttctaatggagtactgcaacctgattaatctttctaacacatagGTCACTTGGTCAAACATCTCCAAGCCTAAATGCATTCGCAGCAGGCCAAGCAGCAGCTTATAAGATGTTTGAGACAATTGCACGAAAGCCAAAAATTGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG