Sequence
atgc intronic sequence ATGC exonic sequencegttcttctattacaacacttatcaaagacatgcttaattcttctccagatgccagaccggacatcacacaggcaagggctttgcttgattggccattcacttccatgaacttaggttggtcttaattagtgcatacaccatgaaacgaacacataagagatcttctgtttcaatgttgatgataaatgttctgttttagGTGTGGTTCCGTATTAATGAGTTACTTCCATTGGAGCTGCAAAAGGATTTACCTGATGGATCTCCATCTGGATCAGCATTTGAATCTCACACTGCCACTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G416684_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os09g10720.1 (Oryza sativa), 3'ss of exon 4
gttcttctattacaacacttatcaaagacatgcttaattcttctccagatgccagaccggacatcacacaggcaagggctttgcttgattggccattcacttccatgaacttaggttggtcttaattagtgcatacaccatgaaacgaacacataagagatcttctgtttcaatgttgatgataaatgttctgttttagGTGTGGTTCCGTATTAATGAGTTACTTCCATTGGAGCTGCAAAAGGATTTACCTGATGGATCTCCATCTGGATCAGCATTTGAATCTCACACTGCCACTG
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-----------------------------------------------------------------------gcaagggctttgcttgattggccattcacttccatgaatttaggttagtcttaattagttcatgctccgtaaaagtgaaatgtaaaaggtcttctgtttctctaattgtatttcatttaccattgtagGTGTGGTTCCGTGTCAATGAATTACTTCCGTTGGAACTTCAAAAGGACTTACCTGATGGATCTCCATCTGGATCAGCTTTTGAGTCGCATATTACTGAGG
upper sequence: GRMZM2G416684_T01 (Zea mays), 3'ss of exon 3
lower sequence: Vv13s0156g00640.t01 (Vitis vinifera), 3'ss of exon 6
gttcttctattacaacacttatcaaagacatgcttaattcttctccagatgccagaccggacatcacacaggcaagggctttgcttgattggccattcacttccatgaacttaggttggtcttaattagtgcatacac-catgaaacgaacacataagagatcttctgtttcaatgttgatgataaatgttctgttt----tagGTGTGGTTCCGTATTAATGAGTTACTTCCATTGGAGCTGCAAAAGGATTTACCTGATGGATCTCC--ATCTGGATCAGCATTTGAATCTCACACTGCCACTG
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-----------------------------------------------------------------------gcaagcgctttgcttgattggccattcatctccatgactttaggttagttttagatggtttgagtccatgtcaacattaggggccaggaattttctgtctgcatgctaatgctgattcttttaatcatggcagGTGTGGTTTCGTGTTAATGAGCAATTGCCTGCTGCATTACAGAAGTCATTACCTGACAGGCCACCTGGGATGAATCA--ATCTGCGGCTGATGGGCATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acgaacacataagagatcttctgtttcaatgttgatgataaatgttctgttttagGTGTGGTTCCGTATTAATGAGTTACTTCCATTGGAGCTGCAAAAGGATTTACCTGATGGATCTCCATCTGGATCAGCATTTGAATCTCACACTGCCACTG
tgttgat putative branch site (score: 4)
ttctgtttt putative PPT
atgataaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcttctattacaacacttatcaaagacatgcttaattcttctccagatgccagaccggacatcacacaggcaagggctttgcttgattggccattcacttccatgaacttaggttggtcttaattagtgcatacaccatgaaacgaacacataagagatcttctgtttcaatgttgatgataaatgttctgttttagGTGTGGTTCCGTATTAATGAGTTACTTCCATTGGAGCTGCAAAAGGATTTACCTGATGGATCTCCATCTGGATCAGCATTTGAATCTCACACTGCCACTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA