Sequence
atgc intronic sequence ATGC exonic sequencegtaaactaagtactataaatatgttgaatcatatctattttcttcaaattttcactcctcaaacaatgttctatgatttgatatattgtggtttttatacagGATACTTGGGATCCTGATTGGCAATCAACATCTAGCAGCAAAGTGACTTATATTGTAAAGAGACTAAAAGCTTTGCAGGAGGCTAATAGAAAGAGTGGCT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G379804_T01 (Zea mays), 3'ss of exon 2
gtaaactaagtactataaatatgttgaatcatatctattttcttcaaattttcactcctcaaacaatgttctatgatttgatatattgtggtttttatacagGATACTTGGGATCCTGATTGGCAATCAACATCTAGCAGCAAAGTGACTTATATTGTAAAGAGACTAAAAGCTTTGCAGGAGGCTAATAGAAAGAGTGGCT
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------------gtacgtgcttgtgctatcttgtccatttttatcccctttgtgtgctattgaaaataa---attttctgaaattttgcaatttcctta--gGATGATTGGGATCCCGATTGGCAATCAACATCTAGCAGCAAAGTTGCTTACATGATTGAGAAGCTAAGAAGTCTGCGAGAAGCACACATGAATCATGGGA
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G21600.1 (Glycine max), 3'ss of exon 3
gtaaactaagtactataaatatgttgaatcatatctattttcttcaaattttcactcctcaaacaatgttctatgatttgatatattgtggtttttatacagGATACTTGGGATCCTGATTGGCAATCAACATCTAGCAGCAAAGTGACTTATATTGTAAAGAGACTAAAAGCTTTGCAGGAGGCTAATAGAAAGAGTGGCT
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----------------------gttaacattcatctttttttccctctttctggttt-----gcaatg--ctaacatgcaatgttgattatttaatacccagGATAATTGGGATCCTGATTGGCAATCTACATCTAGTAGTAAAGTCTCCTATCTCGTCCAGAGGTTGAAAGCTTTGCGAGGAACCAATGAAGAGACATACT
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G28970.1 (Glycine max), 3'ss of exon 5
gtaaactaagtactataaatatgttgaatcatatctattttcttcaaattttcactcctcaaacaatgttctatgatttgatatattgtggtttttata-----cagGATACTTGGGATCCTGATTGGCAATCAACATCTAGCAGCAAAGTGACTTATATTGTAAAGAGACTAAAAGCTTTGCAGGAGGCTAATAGAAAGAGTGGCT
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-----------------------------------------------------------------gtttgcaatggtaacatgcattgttgattgtttaatacccagGATAATTGGGATCCTGATTGGCAATCTACATCTAGTAGTAAAGTCTCGTATCTCGTCCAGAGGTTGAAAGCTTTGCGAGGAACCAAATCAGGGACAAACT
upper sequence: Vv13s0067g03330.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA04G28970.2 (Glycine max), 3'ss of exon 3
--------------------------------------gtaaactaagtactataaatatgttgaatcatatctattttcttcaaattttcactcctcaaacaatgttctatgatttgatatattgtggtttttata-----cagGATACTTGGGATCCTGATTGGCAATCAACATCTAGCAGCAAAGTGACTTATATTGTAAAGAGACTAAAAGCTTTGCAGGAGGCTAATAGAAAGAGTGGCT
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gtacccaaagatcttattgagctacaaccttcatataagcaggcatggt-taatggagaactcagctggcattaacattcatctttttttccctctttc--tggtttgcaatggtaacatgcattgttgattgtttaatacccagGATAATTGGGATCCTGATTGGCAATCTACATCTAGTAGTAAAGTCTCGTATCTCGTCCAGAGGTTGAAAGCTTTGCGAGGAACCAAATCAGGGACAAACT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attttcactcctcaaacaatgttctatgatttgatatattgtggtttttatacagGATACTTGGGATCCTGATTGGCAATCAACATCTAGCAGCAAAGTGACTTATATTGTAAAGAGACTAAAAGCTTTGCAGGAGGCTAATAGAAAGAGTGGCT
atttgat putative branch site (score: 5)
tttttat putative PPT
tatgatttgatatatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaactaagtactataaatatgttgaatcatatctattttcttcaaattttcactcctcaaacaatgttctatgatttgatatattgtggtttttatacagGATACTTGGGATCCTGATTGGCAATCAACATCTAGCAGCAAAGTGACTTATATTGTAAAGAGACTAAAAGCTTTGCAGGAGGCTAATAGAAAGAGTGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA