Sequence
atgc intronic sequence ATGC exonic sequencegtaaggttgatccgtacatttttatgttattctagttcattgcatggctgcatagcctgcgtttgatggtcatgatgtttggtttgtattatcatgtgacttctcttctttcattcattttctagATTGCACTTGGTAATATTTTGAAGTTCCGAAGGAAAAATTGGCAATTTGATGTAATTGGTGGTTTTGTGTACTTTGTCTTGGTTTTCTCAATGTTTCCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os07g04210.1 (Oryza sativa), 3'ss of exon 11
gtaaggttgatcc------gtacattttta--tgttattctagttcattgcatggctgcatagcctgcg-tttgatggtcatga-tgtttggtttgtattatca-tgtgacttctcttctttcattcattttctagATTGCACTTGGTAATATTTTGAAGTTCCGAAGGAAAAATTGGCAATTTGATGTAATTGGTGGTTTTGTGTACTTTGTCTTGGTTTTCTCAATGTTTCCAC
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gtaaggttgattcctgcttgtgtgccttcagcccttcatttggttcattacatagcag---agcttgccctttcatgttcatgagccgattctatttattgccaatttgacttctctccattgtttgcccttccagATTGCACTTGGTAATATTTTGAAGTTCCGAAGGAAGAATTGGCAGTTTGATGTGATTGGTGGTTTTGTGTACTTTGTTTTGGTTTTCTCGATGTTTCCGC
upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 7
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 11
gtaaggttgatccgtacatttttatgttattctagttcattgcatggctgcatagcctgcgtttgatggtcatgatgtttggtttgtattatcatgtgacttctcttctttcattcattt--tctagATTGCACTTGGTAATATTTTGAAGTTCCGAAGGAAAAATTGGCAATTTGATGTAATTGGTGGTTTTGTGTACTTTGTCTTGGTTTTCTCAATGTTTCCAC
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-----gtaaatctgaaaatctaca-gttccattggcttgtca----ataccaaaaatttcattttatattcctttttttttccttttaatttctcaataata-tggtgtattggtcatttgatgcagATTGCATTGGGAAATATTTTGAAGTTCCGAAAGAAGAATTGGCAGTTTGATTTCATTGGTGGCATTATATATTTTGTATTGGTTTTTTCTATGTTTCCAC
upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S72_100V6.1 (Physcomitrella patens), 3'ss of exon 9
gtaaggttgatccgtacatttttatgttattctagttcattgcatggctgcatagcctgcgtttgatggtcatgatgtttggtttgtattatcatgtgacttctcttctttcattcattttctagATTGCACTTGGTAATATTTTGAAGTTCCGAAGGAAAAATTGGCAATTTGATGTAATTGGTGGTTTTGTGTACTTTGTCTTGGTTTTCTCAATGTTTCCAC
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---------gtatgtaaatcataacattcttcaaattactcaaatttatgcctgtctaggacatgatattggacaaagcttatgagtaaatttgtgtgtatggttaccttcc-------ttacagATTGCATGGGGAAACATCTTGAAGTTTCGAAAGAAGAATTGGCGTTTTGATGTAATTGGTGGTGTTGTATACTTTATATTGGTTTTCTCAATGTTCCCAC
upper sequence: GRMZM2G018356_T02 (Zea mays), 3'ss of exon 7
lower sequence: PP1S147_29V6.1 (Physcomitrella patens), 3'ss of exon 10
gtaaggttgatccgtacatttttatgttattctagttcattgcatggctgcatagcctgcgtttgatggtcatgatgtttggtttgtattatcatgtgacttctcttctttcattcattttcta--gATTGCACTTGGTAATATTTTGAAGTTCCGAAGGAAAAATTGGCAATTTGATGTAATTGGTGGTTTTGTGTACTTTGTCTTGGTTTTCTCAATGTTTCCAC
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----------------------tatattattt---tttaaaaaaaagaagc-taagttttgaaagataagtaatctgatttggaggtgtt-tgaactgatttgaactgattgaaatgttttatatagATAGCATTGGGCAACATTTTAAAATTCAGAAGGAAGAATTGGCAATTTGATGTTATTGGTGGTATTGTGTACTTTGTGTTAGTGTTTTCAATGTTTCCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgatgtttggtttgtattatcatgtgacttctcttctttcattcattttctagATTGCACTTGGTAATATTTTGAAGTTCCGAAGGAAAAATTGGCAATTTGATGTAATTGGTGGTTTTGTGTACTTTGTCTTGGTTTTCTCAATGTTTCCAC
tgacttctcttctttc CT-rich tract
tttgtattat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggttgatccgtacatttttatgttattctagttcattgcatggctgcatagcctgcgtttgatggtcatgatgtttggtttgtattatcatgtgacttctcttctttcattcattttctagATTGCACTTGGTAATATTTTGAAGTTCCGAAGGAAAAATTGGCAATTTGATGTAATTGGTGGTTTTGTGTACTTTGTCTTGGTTTTCTCAATGTTTCCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG