Sequence
atgc intronic sequence ATGC exonic sequencegtatgcattataaactgtaaactaggcctgtttgttgttaatatattataaacctgataatgatcatttagcaaacttggctgcacagcttatgatattggcacactgtctttcagctggtatctatataatcagtcaaatttttgaatgtcaagATGCAGGCATGGCAGGAAGAGGTGGAACGTGCACGCCAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: LOC_Os01g54119.1 (Oryza sativa), 3'ss of exon 12
gtatgcattataaactgtaaactaggcctgtttgttgttaatatattataaacctgataatgatcatttagcaaacttggctgcacagcttatgatattggcacactgtctttcagctggtatctatataatcagt-caaatttttgaatgtcaagATGCAGGCATGGCAGGAAGAGGTGGAACGTGCACGCCAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAG
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---------------------------------------------------ccctgcaaatggctaactgcattttttgagt---caagttat-atcctgaaatataacattctgggtatttgttcttttcttaccactgcggtttgaaaaaca-gATGCAAGCATGGCAGGAGGAGGTTGAGCGTGCACGCCAAAGCCAAAGAGAGGCAGAAACCAAGATATCATCTTTGGAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G055219_T01 (Zea mays), 3'ss of exon 12
gtatgcattataaactgtaaactaggcctgtttgttgttaa-tatattataaacctgataatgatcatttagcaaac-ttggctgcacagcttatgatattggcacactgtctttcagctggtatctatataatcagtcaaatttttgaatgtcaagATGCAGGCATGGCAGGAAGAGGTGGAACGTGCACGCCAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAG
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gtgaaaattagaagatcc---ttttgtctttgaggactcaactttgagttgtacttactgcctttgatgtggaatgtgcttgttgcacaaggtgtattactgat-cagggttgtcatactgacataaggttattcacttat-ttgttgtgggaacagATGCAGGCTTGGCAGGAAGAAGTTGAGCGTGCACGCCAAAGCCAACGAGAGGCAGAGGCAAAGATATCATCCTTGGAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA01G01230.1 (Glycine max), 3'ss of exon 14
gtatgcattataaactgtaaactaggcctgtttgttgttaatatattataaacctgataatgatcatttagcaaacttggctgcacagcttatgatattggcacactgtctttcagc-tggtatctatataatcagtcaaatttttgaatgtcaagATGCAGGCATGGCAGGAAGAGGTGGAACGTGCACGCCAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAG
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------------------------------------------------caacagttgccacaaccattt------ctagatgacaattatgataatattagtg-ataatttttcatccttatggaattataacca-tggcagtttcatatatttagATGCAGGCATGGCAGGAAGAATTGGAGCGTGCACGTCAAGGTCAGAGGGAAGCTGAAAACAAGCTATCATCCTTGGAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA16G08430.1 (Glycine max), 3'ss of exon 12
gtatgcattataaactgtaaactaggcctgtttgttgttaatatattataaacctgataatgatcatttagcaaacttggctgcacagcttatgatattggcacactgtctttcagc-tggtatctatataatcagtcaaatttttgaatgtcaagATGCAGGCATGGCAGGAAGAGGTGGAACGTGCACGCCAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAG
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------------------------------------------------cacaagttgccacagccattt------ctagatgacaattatgataatattagt-cataatttttcatccttatggaattataacca-tgggagtttcatatatttagAAGCAGGCATGGCAGGAAGAATTGGAGCGTGCACGTCAAGGTCAGAGGGAAGCTGAAAACAAGCTATCTTCCTTGGAG
upper sequence: Vv11s0016g03230.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT2G19950.2 (Arabidopsis thaliana), 3'ss of exon 12
gtatgcattataaactgtaaactaggcctgtttgttgttaatatattataaacctgataatgatcatttagcaaacttggctgcacagcttatgatattggcacactgtctttcagctggtatctatataatcagtcaaatttttgaatgtcaagATGCAGGCATGGCAGGAAGAGGTGGAACGTGCACGCCAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAG
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---------------------------------------------------gtctactccagcttgttacataacccttgaaa-acaacttttatcagttttgaaaagt---tcagattttggctaatccagagaaattacttttaataatgcagATTCAAGCATGGCAGGACGAAGTGGACCGTGCTCGGCAAGGTCAAAGAGATGCTGAGGAGAAACTTTCTTTGATGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gcacactgtctttcagctggtatctatataatcagtcaaatttttgaatgtcaagATGCAGGCATGGCAGGAAGAGGTGGAACGTGCACGCCAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAG
tatataatcagtcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcattataaactgtaaactaggcctgtttgttgttaatatattataaacctgataatgatcatttagcaaacttggctgcacagcttatgatattggcacactgtctttcagctggtatctatataatcagtcaaatttttgaatgtcaagATGCAGGCATGGCAGGAAGAGGTGGAACGTGCACGCCAAGGTCAAAGAGATGCAGAGGCCAAGCTTTCTTCTATGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT