Sequence
atgc intronic sequence ATGC exonic sequencegtgagtattattccaaaacgctttacatgcctaagtatttctctttttctgcaattgttatttttatcaaatcaatacttttaattgcttcacctgatgagttttgtgtgcagTGATGTCATCCCATGATTCTGTGGGCATAGTCTTTAAATGTTTGTCAAAGGGTGCAGTTGACTTTTTTGTGAAGCCTATTCGAAAAAATGAGCTTAAAAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os03g17570.4 (Oryza sativa), 3'ss of exon 5
gtgagtattattcca----aaacgctttacatgcctaagtatttctctttttctgcaattgttatttttatcaaatcaatacttttaattgcttcacctgatgagttttgtgtgcagTGATGTCATCCCATGATTCTGTGGGCATAGTCTTTAAATGTTTGTCAAAGGGTGCAGTTGACTTTTTTGTGAAGCCTATTCGAAAAAATGAGCTTAAAAA
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gtaagtagcattcttgctcaaccacatttttcacttatatactgtgacacatttctacataaccttttagtc---tgaatatgtttgactgatgc---tgatgtcattttcatgcagTGATGTCTTCGAATGACTCAATGGGTACAGTCTTTAAGTGTTTGTCAAAAGGAGCAGTTGACTTTCTAGTGAAGCCTATACGTAAGAATGAACTTAAGAA
upper sequence: Vv13s0067g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os07g49460.3 (Oryza sativa), 3'ss of exon 5
gtgagtattattccaaaacgctttacatgcctaagtatttctctttttctgcaattgttatttttatcaaatcaatacttttaattgcttcacctgatgagttttgtgtgcagTGATGTCATCCCATGATTCTGTGGGCATAGTCTTTAAATGTTTGTCAAAGGGTGCAGTTGACTTTTTTGTGAAGCCTATTCGAAAAAATGAGCTTAAAAA
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gtaagtagctttcctcaac--tctacagtacaattcttgtacaaaatgttgcccttgtcatttatttactttctatgcttttagctgctacac-tgttgtggtttatgtgcagTGATGTCTTCAAATGATGCTATGGGTACAGTTTTTAAGTGTTTGTCAAAGGGCGCTGTTGACTTCTTAGTCAAGCCCATACGTAAGAATGAACTTAAGAA
upper sequence: Vv13s0067g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G005732_T02 (Zea mays), 3'ss of exon 2
gtgagtattattccaaaacgctttacatgcctaagtatttctctttttctgcaattgttatttttatcaaatcaatacttttaattgcttcacctgatgagttttgtgtgcagTGATGTCATCCCATGATTCTGTGGGCATAGTCTTTAAATGTTTGTCAAAGGGTGCAGTTGACTTTTTTGTGAAGCCTATTCGAAAAAATGAGCTTAAAAA
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gtaagtaactttcatctctacagtgtagttcatatcatgattaaaatgttgctttcatcatttatttagtcccaatgcttttagctgctacac-tgatgttgtttgtgtgcagTGATGTCTTCGAGTGATGCTATGAGTACAGTCTTTAAATGTTTGTCAAAAGGTGCTGTTGACTTTTTAGTCAAGCCTATACGTAAGAATGAACTTAAGAA
upper sequence: Vv13s0067g03390.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G033962_T01 (Zea mays), 3'ss of exon 2
gtgagtattattccaaaacgctttacatgcctaagtatttctctttttctgcaattgttatttttatcaaatcaatacttttaattgcttcacctgatgagttttgtgtgcagTGATGTCATCCCATGATTCTGTGGGCATAGTCTTTAAATGTTTGTCAAAGGGTGCAGTTGACTTTTTTGTGAAGCCTATTCGAAAAAATGAGCTTAAAAA
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gtaagtaactttcctctgtacagtgtagttcatatcatgatcaaaatgttgctttcttgatttatttagttccaatgcttttagctgctacacc-gatgtggtttttgtgcagTGATGTCTTCGAGTGATGATATGAGTACAGTCTTTAAATGTCTGTCAAAAGGTGCTGTTGACTTTTTGGTCAAGCCTATACGTAAGAATGAACTTAAGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatttttatcaaatcaatacttttaattgcttcacctgatgagttttgtgtgcagTGATGTCATCCCATGATTCTGTGGGCATAGTCTTTAAATGTTTGTCAAAGGGTGCAGTTGACTTTTTTGTGAAGCCTATTCGAAAAAATGAGCTTAAAAA
ttatcaaatcaatact 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtattattccaaaacgctttacatgcctaagtatttctctttttctgcaattgttatttttatcaaatcaatacttttaattgcttcacctgatgagttttgtgtgcagTGATGTCATCCCATGATTCTGTGGGCATAGTCTTTAAATGTTTGTCAAAGGGTGCAGTTGACTTTTTTGTGAAGCCTATTCGAAAAAATGAGCTTAAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT