Sequence
atgc intronic sequence ATGC exonic sequencegtaactactcttttgaggggggggggggtcttaaccacactgtactattttttattcatgtcattcttactttctaagGCTGAATCCTCTTCTCTTACCTCACAGTACCTTGATACAGCAGAATTTGCAATGCGTGAAGAGTTGTCTCTGAAGGCAGCTATTCTTGCAGAAAAATTTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 12
lower sequence: LOC_Os03g02150.2 (Oryza sativa), 3'ss of exon 11
---------------gtaactactcttttgaggggggggggggtcttaaccacactgta--ctattttttattcatgtcat-------tcttactttctaagGCTGAATCCTC----TTCTCTTACCTCACAGTACCTTGATACAGCAGAATTTGCAATGCGTGAAGAGTTGTCTCTGAAGGCAGCTATTCTTGCAGAAAAATTTG----------------
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gtatataatattgaaatagtggtctctcaaatgaaaaataaacttcgaaaaatattgaggcatgttatttgtcgatgtcatctgttggtcttgttatgtgaatcctaagactagttattatcttgtttctcagTATCTTAACACAGCTGAATTTGCAATGCGCGAAGAGCTGTCCCTGAAGGCAGCTATCCTTGCTGAGAAATTCGCTCCAGATCTTTCATG
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA17G05410.1 (Glycine max), 3'ss of exon 11
-----------------------------------------------------------------------gtaactactcttttgaggggggggggggtcttaaccacactgtactattttttattcatgtcattcttactttctaagGCTGAATCCTCTTCTCTTACCTCACAGTACCTTGATACAGCAGAATTTGCAATGCGTGAAGAGTTGTCTCTGAAGGCAGCTATTCTTGCAGAAAAATTTG----------------
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gtatagagctaggtccgaactaattcatgcaatttgaaaatctcattaaagtaaaccctacccccttcccaacagcaacctcatggaacaataaacaaa--ataaagaaaatgaaccagctattacctg-gatacacaaaatgatta-gtttgcaattccaactttt---ttgtagTATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGACCTTTCATG
upper sequence: GRMZM2G137236_T01 (Zea mays), 3'ss of exon 12
lower sequence: GLYMA12G30520.1 (Glycine max), 3'ss of exon 11
---------------------------------------------------------gtaactactcttttgagggggg---ggggggtcttaaccacactgtactattttttattcatgtcattcttactttctaagGCTGAATC-CTCTTCT--CTTACCTCACAGTACCTTGATACAGCAGAATTTGCAATGCGTGAAGAGTTGTCTCTGAAGGCAGCTATTCTTGCAGAAAAATTTG----------------
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gtatggagctaggtccaaactaattcatgaaatttgaaaatctcattaaagtaaaccgtatctccttcccaacagaaacctcatggaacaataaacaaaagaaagaaaatgaaccagctattacctggatacacaatgattagtttgctattccaactgtttttgtagTATCTCAGCACAGCGGAGTTTGCAATGCGTGAGGAATTGTCACTTAAAGCAGCTATTCTTGCTGAGAAGTTTGCACCAGATCTTTCATG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gggggtcttaaccacactgtactattttttattcatgtcattcttactttctaagGCTGAATCCTCTTCTCTTACCTCACAGTACCTTGATACAGCAGAATTTGCAATGCGTGAAGAGTTGTCTCTGAAGGCAGCTATTCTTGCAGAAAAATTTG
ttcttac putative branch site (score: 2)
tcattcttactttct CT-rich tract
tactattttttattca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactactcttttgaggggggggggggtcttaaccacactgtactattttttattcatgtcattcttactttctaagGCTGAATCCTCTTCTCTTACCTCACAGTACCTTGATACAGCAGAATTTGCAATGCGTGAAGAGTTGTCTCTGAAGGCAGCTATTCTTGCAGAAAAATTTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT