Sequence
atgc intronic sequence ATGC exonic sequencegtaagttcttgtcacttgtgcagtactactgtactgtacttagcttttttttacgccaagttcactataatataaagtctccagttttagtaaaaaagtaaacgaatttgtgttgtgaaagcactcgccttgtgatcttttttctcccccctgatagtagtaacaattaataaatttgcgcagGCACGCAGGAGGAAGCGGCGGAGGCGTACGACATCGCGGCGATCAAGTTCCGTGGCCTCAACGCGGTGACCAACTTCGACATCAGCAAGTACGACGTGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G399072_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S131_139V6.1 (Physcomitrella patens), 3'ss of exon 5
gtaagttcttgtcacttgtgcagtacta--ctgtactgtacttagcttttttttacgccaagttcactataat-ataaagtctccagttttagt---aaaaaagtaaacgaatttgtgttgtgaaagcactcgccttgtgatcttttttctcccccctgata----gtagtaacaattaataaattt------gcgcagGCACGCAGGAGGAAGCGGCGGAGGCGTACGACATCGCGGCGATCAAGTTCCGTGGCCTCAACGCGGTGACCAACTTCGACATCAGCAAGTACGACGTGAA
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gtgagtgccggtttcacatgaatttgtaaacattagtggattaccctcgctgcaaatcctggtcgtttctcctgataggacttctgatatcgattccggagacatcagcatattctgggtctcgttgcaatgttgaaaggatttcgcagggtgcccatgttacctaatggttaaaatgaactggctttgtatgactcagGCACACAAGAGGAAGCAGCAGAGGCCTACGACATTGCCGCGATAAAATTCCGTGGAATCAATGCCGTCACAAACTTCGACATGTCTCGTTACAATGCTGC
upper sequence: GRMZM2G399072_T02 (Zea mays), 3'ss of exon 5
lower sequence: PP1S66_282V6.1 (Physcomitrella patens), 3'ss of exon 6
gtaagttcttgtcacttgtgcagtactactgtactgtacttagcttttttttacgccaagtt-cactataatataaagtctccagttttagtaaaaaagtaaacgaatttgtgttgtgaaagcactcgccttgtgatcttttttctcccccctgatagtagtaacaattaataaatttgcg-cagGCACGCAGGAGGAAGCGGCGGAGGCGTACGACATCGCGGCGATCAAGTTCCGTGGCCTCAACGCGGTGACCAACTTCGACATCAGCAAGTACGACGTGAA
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-----------------------------------gtgagtggcagtttgacttgggggtttgcagaggaggagggggtttgtatgtgttgttgggatgtggagggagatgtgcagttgcagcagacg--tggggatctgat------ccaacggtcggcgtggcg-tgggtgtgtgtgagtcagGCACGCAGGAGGAAGCAGCAGAGGCATACGACCTGGCGGCGATAAAATTCCGTGGAATCAACGCCGTGACAAACTTCGACATCTCTCGGTACGACGCCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttgtgatcttttttctcccccctgatagtagtaacaattaataaatttgcgcagGCACGCAGGAGGAAGCGGCGGAGGCGTACGACATCGCGGCGATCAAGTTCCGTGGCCTCAACGCGGTGACCAACTTCGACATCAGCAAGTACGACGTGAA
atagtagtaacaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagttcttgtcacttgtgcagtactactgtactgtacttagcttttttttacgccaagttcactataatataaagtctccagttttagtaaaaaagtaaacgaatttgtgttgtgaaagcactcgccttgtgatcttttttctcccccctgatagtagtaacaattaataaatttgcgcagGCACGCAGGAGGAAGCGGCGGAGGCGTACGACATCGCGGCGATCAAGTTCCGTGGCCTCAACGCGGTGACCAACTTCGACATCAGCAAGTACGACGTGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG