Sequence
atgc intronic sequence ATGC exonic sequence...gatattcaataaactatcatattatgactagtgttagcatttatcgtataagcgaagtttggcttattttggttctttcttcttatgtgacatttaacagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G348602_T01 (Zea mays), 3'ss of exon 1
gatattcaataaactatcatattatgactagtgttagcatttatcgtataagcgaagtttggcttattttggttctttcttcttatgtgacatttaacagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
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---------------------------------------------------------gtgagcttatttaactggcattgtgatgtttt---ctggacagGATGAGAAGTACTGGCCATTGATGCCAGCATTACCGTCATATGGGTATGGGCGGGAGCGCAAAGGACCACGATTTGGGAGCCTCATTCATGGACAGAATT
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G047414_T01 (Zea mays), 3'ss of exon 1
-gatattcaataaactatcatatta--tgactagtgttagcatttatcgtataagcgaagtttggcttattttggttctttcttcttatgtgacatttaacagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
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cagagtttggtagatgcctatggtgcttatttgggggcacaaatgcccacatttcagattgtgagcttatttaactggcattgtgatgtttt---ctggacagGATGAGAAGTACTGGCCATTGATGCCAGCATTACCGTCATATGGGTATGGGCGGGAGCGCAAAGGACCACGATTTGGGAGCCTCATTCATGGACAGAATT
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA17G05550.1 (Glycine max), 3'ss of exon 1
gatattcaataaa-ctatca-tattatgactagtgttagcatttatcgtataagcgaa-gtttggcttattttggttctttcttcttatgtgacatttaacagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
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---ctttgataaatctatttctttcattacatatctcttccgctctctcataattaaacattttactgacactatatttgtcatcttacgtgatggctaacagGATGAAAAATATTGGCCACTGATGCCTCCATTGCCTTCATATGGGTATGGGAGGGAGCATCCTGGGCCTCGATATGGCAGTTTGATTCATGGTCAACATC
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA13G17170.1 (Glycine max), 3'ss of exon 1
gatattcaataaactatca-tattatgactagtgttagcatttatcgtataagcgaa-gtttggcttattttggttctttcttcttatgtgacatttaacagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
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--ttctctttgatctatttctttcattacatatctcttccactctctcataagtaaacattttactgacactatatttgtcatcttacgtgatggctaacagGATGAAAAATATTGGCCATTGATGCCTCCATTGCCTTCATATGGGTATGGGAGGGAGCATCCTGGGCCTCGATATGGCAGTTTGATTCATGGTCAACATC
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G19820.1 (Glycine max), 3'ss of exon 1
gatattcaataaactat-catattatgactagtgttagcatttatcgtataagcgaagtttggcttattttggttctttcttcttatgtgacatttaacagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
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-atattttttgctttacatctaacctaatgtctctttccacatctcttgattaaaacattttacttactatatatttgttatcctgtgtgatgattaacagGATGAAAAGTATTGGCCACTGATGCCTGCATTGCCTTCATATGGGTATGGAAGGGAGCATCCCGGTCCTCGATATAGTAGTTTAATTCATGGTCAAAATC
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G08270.1 (Glycine max), 3'ss of exon 1
---gatattcaataaactatcatattatgactagtgttagcatttatcgtataagcgaagtttggcttattttggttctttcttcttatgtgacatttaacagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
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ctcgaactctatctattttgctttacatgtctctttccctcactcttgattaaaaca---ttttacttactttatgtttgttatcctgtgtgatgattaacagGATGAAAAGTATTGGCCATTGATGCCCGCATTGCCTTCATATGGGTATGGAAGGGAGCATCCTGGTCCTCGATATAGCAGTTTAATTCATGGTCAAAATC
upper sequence: Vv11s0016g00720.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G42950.1 (Arabidopsis thaliana), 3'ss of exon 1
--------------gatattcaat---aaactatcatattatgactagtgttagcatttatcgtataagc-gaagtttggcttatt-ttggttctttcttcttatgtgacatttaa-------cagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
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gttttgtttcctctgatttgaaattgtgatctatgtgtttgggatctgtttagggttttgatgcagagtttgttatttggttcactattgaattaagattgggttttgatgttgaaacgtttttagGATGAAAAGTATTGGTCTTTGCTTCCTCCTTTACCTTCATATGGATATGGAAGAGAGCATCATGGACCTCGTTATGGAAGTTTCATTCATGGACAGAATC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtataagcgaagtttggcttattttggttctttcttcttatgtgacatttaacagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
ttatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gatattcaataaactatcatattatgactagtgttagcatttatcgtataagcgaagtttggcttattttggttctttcttcttatgtgacatttaacagGATGAGAAGTATTGGCCACTGATGCCTCCCTTGCCTTCATATGGGTATGGGAGAGAGCATCGTGGAGCTCGATATGGGAGTTTGATTCATGGTCAAAATC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GTGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - -aataaac