Sequence
atgc intronic sequence ATGC exonic sequencegtatattttttgcataggaaaaaaatgcagacctctttttttatttcatatctaatgataatcccaaaatggctgaaaattattcagactgggcatgcatttttttcaacatggaaatatttgatggatgatgtttctgaacaaggccgctacattttgcagATGAGAACTCTAGCGAAGAACAAAGAGAACCCTCCAGACGGATTTATGTGCCCGGGTGGTTGGGAAGTGTTGGTGGAATATTATGACAGTTTGGTGCCCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G051270_T02 (Zea mays), 3'ss of exon 5
gtatattttttgcataggaaaaaaatgcagacctctttttttatttcatatctaatgataatcccaaaatggctgaaaattattcagactg--ggcatgc-atttttttcaacatggaaatatttgatggatgatgtttctgaacaaggccgctacattttg--cagATGAGAACTCTAGCGAAGAACAAAGAGAACCCTCCAGACGGATTTATGTGCCCGGGTGGTTGGGAAGTGTTGGTGGAATATTATGACAGTTTGGTGCCCA
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--------------------------------------------------------------------------gtaagttttcacaactgctgggatgttgtgattttcagcacc--aatcctttgtcgtcactagtcaaatcctaactaatcatgccttattcagATGCGCACTCTTGCCAAGAACCGCGAGAGTCCCCCGGATGGTTTTATGTGCCCGGGTGGCTGGAAAGTGCTCGTTGAATACTATGACAGCTTGGTGCCAT
upper sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA20G28980.2 (Glycine max), 3'ss of exon 4
gtatattttttgcataggaaaaaaatgcagacctctttttttatttcatatctaatgataatcccaaaatggctgaaaattattcagactgggcatgcatttttttcaacatggaaatatttgatggatgatgtttctgaacaaggccgct-acattttgcagATGAGAACTCTAGCGAAGAACAAAGAGAACCCTCCAGACGGATTTATGTGCCCGGGTGGTTGGGAAGTGTTGGTGGAATATTATGACAGTTTGGTGCCCA
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------------------------------------------------tattttctaggtgtaacataatgg-tgttcattatgataatagtgtgagtatgttatt--------acatatttgtagtatg------ttaacaaaggttacttgcattttacagATGCGCACACTGGCAAGGAACAAAGAAAGCCCTCCTGATGGATTTATGTGCCCTGGTGGTTGGAAGGTACTGGTTGAATACTATGATAGCTTAGTACTCT
upper sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G22890.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatattttttgcataggaaaaaaatgcagacctctttttttatttcatatctaatgataatcccaaaatggctgaaaattattcagactgggcatgcatttttttcaacatggaaatatttgatggatgatgtttctgaacaaggccgctacattttgcagATGAGAACTCTAGCGAAGAACAAAGAGAACCCTCCAGACGGATTTATGTGCCCGGGTGGTTGGGAAGTGTTGGTGGAATATTATGACAGTTTGGTGCCCA
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------------------------------------------------------------gtaatataccagtcctacattgttaaaattcttcatagtttgtttataaaac--aaacctctaa------atgtttttcgatta------------ttctagATGCGCACATTGGCAAAGAACAACGAAAACCCGCCAGACGGTTTTATGTGCCCAGGTGGATGGAAAGTTCTGGTGGATTACTATGAGAGCTTGACTCCGG
upper sequence: Vv05s0020g04210.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT4G14680.1 (Arabidopsis thaliana), 3'ss of exon 4
gtatattttttgcataggaaaaaaatgcagacctctttttttatttcatatctaatgataatcccaaaatggctgaaaattattcagactgggcatgcatttttttcaacatggaaatatttgatggatgatgtttctgaacaaggccgctacattttgcagATGAGAACTCTAGCGAAGAACAAAGAGAACCCTCCAGACGGATTTATGTGCCCGGGTGGTTGGGAAGTGTTGGTGGAATATTATGACAGTTTGGTGCCCA
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-----------------------------------------------gtaaataaacact-tctcaaaccaattgggacataatgtaactaagctcaagtgtattc---------aatttctgatcaaagatttg-------atggttgtt----ttgatagATGAGAGCATTGGCAAAGAACAGAGAGAACCCACCAGATGGATTTATGTGCCCTGGAGGCTGGAAAGTCCTTGTGGATTACTACGACAGTTTGACACTAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacatggaaatatttgatggatgatgtttctgaacaaggccgctacattttgcagATGAGAACTCTAGCGAAGAACAAAGAGAACCCTCCAGACGGATTTATGTGCCCGGGTGGTTGGGAAGTGTTGGTGGAATATTATGACAGTTTGGTGCCCA
atttgat putative branch site (score: 5)
aaatatttgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatattttttgcataggaaaaaaatgcagacctctttttttatttcatatctaatgataatcccaaaatggctgaaaattattcagactgggcatgcatttttttcaacatggaaatatttgatggatgatgtttctgaacaaggccgctacattttgcagATGAGAACTCTAGCGAAGAACAAAGAGAACCCTCCAGACGGATTTATGTGCCCGGGTGGTTGGGAAGTGTTGGTGGAATATTATGACAGTTTGGTGCCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA