Sequence
atgc intronic sequence ATGC exonic sequencegtaaagccttctctagattcactaccctgtaatgcttcatgatttgctttctttgtgctcatgtttgctctcgaaattttgcagAGAAATGCAAAATAGGATCCACTCCACAGAATGATTGGTACTTCTTCAGTCACAAAGATAAGAAGTACCCCACAGGGACAAGAACAAATCGCGCCACCGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv02s0025g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os08g02300.1 (Oryza sativa), 3'ss of exon 1
--------------------------------------------------------------gtaaagccttctctagattcactaccctgtaatgcttcatgatttgctttctt---tgtgctcatgtttgctctcgaaattttgcagAGAAATGCAAAATAGGATCCACTCCACAGAATGATTGGTACTTCTTCAGTCACAAAGATAAGAAGTACCCCACAGGGACAAGAACAAATCGCGCCACCGC
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gtagctaagctagtattcctcatcatataacctttctcctctccaattctcaatttctagctaccaaatcgatgatggatttatcaatcaatcgagctaagctagctaagtaatggtgtgtgtgcaaaatatatattgtggtt--gcagAGAGGTGTAAGATTGGGTCAGGGCCGCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGAGGACGAACAGGGCGACGGC
upper sequence: Vv02s0025g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G092465_T03 (Zea mays), 3'ss of exon 1
----------gtaaagccttctctagattcactaccctgtaatgcttcatgat-ttgctttctttgt--gctcatgtttgctctcgaaattt---tgcagAGAAATGCAAAATAGGATCCACTCCACAGAATGATTGGTACTTCTTCAGTCACAAAGATAAGAAGTACCCCACAGGGACAAGAACAAATCGCGCCACCGC
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atcaaacgcgatcgaattcatcgcgcgctaactactggctaacaactgctactactactaaagccgctagctccattccatgcatggaaatcgcgcgcagAGAAATGCAAGATCGGGTCGGGTCCCCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGCGCACCAACCGCGCCACGGC
upper sequence: Vv02s0025g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G171395_T01 (Zea mays), 3'ss of exon 1
---------------------------------------------------gtaaagccttctctagattc----actaccctgtaatgcttcatgatt--tgctttctttgtgctcatgtttgctctcgaaattt-tgcagAGAAATGCAAAATAGGATCCACTCCACAGAATGATTGGTACTTCTTCAGTCACAAAGATAAGAAGTACCCCACAGGGACAAGAACAAATCGCGCCACCGC
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gtagtactacgctgttacgcacgcacgcgcttgcttgctgcatacatgtctatgcggccatgcatacatgcctctgccgtccgtctgccctccccgatgcatatatggccgatcctgatcgtcgagccggtgaccgatgcagAGAAGTGCCGCATCGGTTCGGGCCCCCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGCGCACCAACCGCGCCACCGC
upper sequence: Vv02s0025g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G069047_T01 (Zea mays), 3'ss of exon 1
------------------------------------------------------------------------------------------------------gtaaagccttctctagattcactaccctgtaatgc-ttcatgatttgctttctttgtgctcatgtttgctctcgaaattttgcagAGAAATGCAAAATAGGATCCACTCCACAGAATGATTGGTACTTCTTCAGTCACAAAGATAAGAAGTACCCCACAGGGACAAGAACAAATCGCGCCACCGC
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gtacggtatacttaccaccatataccttccatctccgaggtccgagcaaagcatcagctcgtgatcataggatcggatcggagctggtgacctgatggtcatgtcacacgagcatgaacgtgagctgatcatcgtacgtccatggcgctgatcatcggggttagttatcgattctgcgtgcatgcagAGAGATGCAAGATCGGGTCGGGTCCCCAGAACGACTGGTACTTCTTCAGCCACAAGGACAAGAAGTACCCGACGGGGACGCGCACCAACCGCGCTACGGC
upper sequence: Vv02s0025g02710.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: PP1S182_37V6.1 (Physcomitrella patens), 3'ss of exon 1
-------------------------------------------------------------------------------------------------------------------------gtaaagccttctctagattcactaccctgtaatgcttcatgatttgctttctttgtgctcatgtttgctctcgaaattttgcagAGAAATGCAAAATAGGATCCACTCCACAGAATGATTGGTACTTCTTCAGTCACAAAGATAAGAAGTACCCCACAGGGACAAGAACAAATCGCGCCACCGC
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gtaagcatcggaatcctgaaggtagtatggtgcagtgttcaacctcctcatctagtttcgtcaaaaaataaacatttaaaacagtactatccattgaattgtgatcaacataagctcaagagcatgttctcctcatctattgatagcatgaaatggtccagcagt--attgacaaaaacttgttgcaccgatcagAAGTGTGCAGGATCGGGGACGAC-GCACCAGAGCATCAAAGTGACTGGTACTTCTTCAGCCACAAGGATAAGAAGTATCCCACAGGAAACCGTGCCAACCG--------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taatgcttcatgatttgctttctttgtgctcatgtttgctctcgaaattttgcagAGAAATGCAAAATAGGATCCACTCCACAGAATGATTGGTACTTCTTCAGTCACAAAGATAAGAAGTACCCCACAGGGACAAGAACAAATCGCGCCACCGC
aaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaagccttctctagattcactaccctgtaatgcttcatgatttgctttctttgtgctcatgtttgctctcgaaattttgcagAGAAATGCAAAATAGGATCCACTCCACAGAATGATTGGTACTTCTTCAGTCACAAAGATAAGAAGTACCCCACAGGGACAAGAACAAATCGCGCCACCGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC