Sequence
atgc intronic sequence ATGC exonic sequencegtactgactaatcatgaatcatttcttaatgacacattataaatttatgttcacatgattattacagtttgcgcttccatatttatcccatatttccacattctttgtcatgattatctgaagGGCAACGAATGACCTTAGGCCACATGTTGGTGATGTTGATGCTACTGCAGTGCCATGTGGCTTTGGGCGTGCTATTGGCAACAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G318949_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os08g41270.2 (Oryza sativa), 3'ss of exon 5
gtactgactaatcatgaa-tcatttcttaatgacacattataaatttatgttcacatgattattacagtt--tgcgcttccatatttatcccatatt-tccacat----tctttgtcatgattatctgaagGGCAACGAATGACCTTAGGCCACATGTTGGTGATGTTGATGCTACTGCAGTGCCATGTGGCTTTGGGCGTGCTATTGGCAACAAG
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gtactggtttatcttaaaaccatttcttagtgaaacatttt---tctgttattatataattatcattttttttgcacttttgtacttttctcatacgatatgtatggcatgtacatcatgataatttcaagGGCAAGGAAGGACCTTAAGCCACATGTTGGTGATGTTGATGCTGCTGCAGTACCATGTGGCTTTGGGCGTGCTATTGGCAACAAG
upper sequence: GRMZM2G318949_T01 (Zea mays), 3'ss of exon 3
lower sequence: GLYMA20G36090.1 (Glycine max), 3'ss of exon 4
gtactgactaatcatgaatcatttcttaatgacacattataaatttatgttcacatgattattacagtttgcgcttccatatttatcccatatttccacattctttgtcatgattatctgaagGGCAACGAATGACCTTAGGCCACATGTTGGTGATGTTGATGCTACTGCAGTGCCATGTGGCTTTGGGCGTGCTATTGGCAACAAG
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-------------atcaactattttcc--tcctttgatttgaatttttgtct---ttgttatctaaatt----cttccttgctgctctctt-tgcctaaagtagttgaatttttctttttcagGGTTAAAACCAACATTAGATTTCATGTTGGGGATGTCGAAGTGGCAGCAGTTCCATGTGGCTTTGGACGTGCTATTGGCAATAAG
upper sequence: GRMZM2G318949_T01 (Zea mays), 3'ss of exon 3
lower sequence: AT1G05630.1 (Arabidopsis thaliana), 3'ss of exon 4
----gt-actgactaatcatgaatcatttcttaatgacacattataaatttatgttcacatgattattacagtttgcgcttccatatt---tatcccatatttccacattctttgtcatgattatctga---agGGCAACGAATGACCTTAGGCCACATGTTGGTGATGTTGATGCTACTGCAGTGCCATGTGGCTTTGGGCGTGCTATTGGCAACAAG
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gtaagtgaatgttctgtcatgacatgttgcattctcgtgc-ttgtcattcaacacttttgcaaggtttccaatcagcagttgtgtatcatctatgattaaccaacctattgtgtgctgtaattttctgctttagGGCGAGGAAGGATATTAGAACTCATGTTGGAGATCTTGATGTTGCAGCAGTTCCATGTGGTTTTGGCCGTGCCATTGGCAACAAG
upper sequence: GRMZM2G318949_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv00s0220g00160.t01 (Vitis vinifera), 3'ss of exon 3
gtactgactaatcatgaatcatttcttaatgacacattataaatttatgttcacatgattattacagtttgcgcttccatatttatcccatatttccacattctttgtcatgattat-ctgaagGGCAACGAATGACCTTAGGCCACATGTTGGTGATGTTGATGCTACTGCAGTGCCATGTGGCTTTGGGCGTGCTATTGGCAACAAG
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----------------cattctctttttgggccaagtcat----ctacattcttggtcttattaggtttta---ttgctaattggtgacttagcactg-atacttgaaaagaattatgtttcagGGTTAGAAATAATATCAGAGCTCATGTTGGAGATGTTGATGCTGCAGCAGTTCCATGTGGATTTGGGCGTGCAATCGGTAATAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgcgcttccatatttatcccatatttccacattctttgtcatgattatctgaagGGCAACGAATGACCTTAGGCCACATGTTGGTGATGTTGATGCTACTGCAGTGCCATGTGGCTTTGGGCGTGCTATTGGCAACAAG
atatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactgactaatcatgaatcatttcttaatgacacattataaatttatgttcacatgattattacagtttgcgcttccatatttatcccatatttccacattctttgtcatgattatctgaagGGCAACGAATGACCTTAGGCCACATGTTGGTGATGTTGATGCTACTGCAGTGCCATGTGGCTTTGGGCGTGCTATTGGCAACAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG