Sequence
atgc intronic sequence ATGC exonic sequencegtactaaaccagtttctttaacactttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttttttccttgtgatgtactgaaggtgcccaaaaacttgctcgcggatgttcgattaaataattcttttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G055854_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os11g31640.1 (Oryza sativa), 3'ss of exon 9
gtactaaaccagtttctttaacactttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttttttcc-ttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCGGATGTTCGATTAAATAATTCTTT--TTTCCTTGTGATGTACTGAAGGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
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---------------------------------------------------------------gtactagccttttcttctgcttcgaccctttcaatgcgctgcaggctatccatgtaagttttactttcaattcttatttattttggttttgatgtcttgcagGTGCCCAGAAACTTGCACGCATCCGTGAGAACAGCAATTTCTTTAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTCGGAGACAATGACTCTCCAGT
upper sequence: GRMZM2G055854_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA02G07250.1 (Glycine max), 3'ss of exon 9
gtactaaaccagtttctttaacact--ttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCGGATGTTCGATTAAATAATTCTTTTTTCCTTGTGATGTACTGAAGGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
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-----------gtttggctggcactagttctgctctttgc-tttgcatttgtattg--------tttgatgattttttatgtgcatcaatccaaataatattcgtctac-tttgtttac---cgtgcattgaagtaagttttttct-------atata-----gGTGCCCAGAAACTTGCACAAATTCGAGAGAATAGCAACTTTTTTAGGTCAGAACTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
upper sequence: GRMZM2G055854_T01 (Zea mays), 3'ss of exon 7
lower sequence: GLYMA16G26210.1 (Glycine max), 3'ss of exon 9
gtactaaaccagtttctttaacact--ttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttttttccttgtgatgtactgaa-gGTGCCCAAAAACTTGCTCGCGGATGTTCGATTAAA-TAATTCTTTTTTCCTTGTGATGTACTGAAGGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
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-----------gtttggctggcactagttctgctctttgc-tttgcatttgtatt--------------tgatggttttttacgtgcatcaatccaaataatattcatctactt---tgtttaccttgcattgaagtaagttgtttct-------atata-----gGTGCCCAGAAACTTGCACAAATTCGAGAAAATAGCAACTTTTTCAGGTCAGAATTGCAGAAGATGGGATTTGAGGTTCTTGGGGATAATGATTCTCCAGT
upper sequence: GRMZM2G055854_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv14s0068g01300.t01 (Vitis vinifera), 3'ss of exon 9
gtactaaaccagtttctttaacactttttgcccttttcatttgcagc-tgtgttaatgttcgattaaa-taattcttttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCGGATGTTCGATTAAATAATTCTTTTTTCCTTGTGATGTACTGAAGGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
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------------------------------------------gtaggataaataaatcttctgtcatgcttggttttaacttctattcttgaatctttaggtttcagactctccattgctttaattgtttt---tgattttagtgctcttgtg-tcca-tgtagGAGCCCAAAAACTTGCACAAATACGTGAGAATAGCAACTTTTTCAGGTCAGAACTGCAGAGCATGGGTTTTGAGGTTCTTGGGGATAATGACTCTCCAGT
upper sequence: GRMZM2G055854_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv17s0000g00500.t01 (Vitis vinifera), 3'ss of exon 10
gtactaaaccagtttctttaacactttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttttttccttgtgatgtactgaagGTGCCCAAAAACTTG-CTCGCGGATGTTCGATTAAATAATTCTTTTTTCCTTGTGATGTACTGAAGGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
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--------------------------------------------------gttcaccctc--ttctatatttcaccatttatggtggctca-tgcagctctgcaaacctagatcttgagcttatttgctt--attgtttgatctgcttttgtttaaatattagGGGCTCAGAAATTGGCACGAATACGTGAGAACAGTAACTTTTTCAGATCAGAACTGCAGAAGATGGGCTTTGAGGTTCTTGGAGATAATGATTCTCCTGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgctcgcggatgttcgattaaataattcttttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
ttcgattaaataattc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactaaaccagtttctttaacactttttgcccttttcatttgcagctgtgttaatgttcgattaaataattcttttttccttgtgatgtactgaaggtgcccaaaaacttgctcgcggatgttcgattaaataattcttttttccttgtgatgtactgaagGTGCCCAAAAACTTGCTCGCATCCGCGAGAATAGTAATTTCTTCAGGTCAGAGCTCAAGAAGATGGGTTTTGAGGTTCTTGGTGACAATGACTCTCCTGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG