Sequence
atgc intronic sequence ATGC exonic sequencegtatgtgaaaaagaatggaattttggcatttgttaggaacatataatcatgctaattttataccatctaataataccagcctctcattttaccgttggaagtgctcatagctttcctgcatctgtattcttgcatttgactatcagGTGAATTATGGCAACTTTATCCATGGATTAATGAAGGAGAACATCCAACTCAACAGGAAGGTGCTCTCAGAGCTGTCGATGCATGAACCTTACAGCTTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G028547_T01 (Zea mays), 3'ss of exon 1
lower sequence: LOC_Os01g53280.1 (Oryza sativa), 3'ss of exon 2
--------------------gtatgtgaaaaagaatggaattttggcatttgttaggaac-atataatcatgc------taattttatacc---atctaataataccagcctctca---ttttaccgttggaagtgc-tcatagctttcctgcatctgtattcttgcatttgactatcagGTGAATTATGGCAACTTTATCCATGGATTAATGAAGGAGAACATCCAACTCAACAGGAAGGTGCTCTCAGAGCTGTCGATGCATGAACCTTACAGCTTTA
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gtatgtatccattgcactcaagctgtcaaaaaggaaatatcattggtagttgctaggaaagatctaatcatacgccgttccatcctgtgcttgagcctttcaaaacaaacaattcaagataacactactagacttacatcttggagtttaagtagctcttttcttgcatttgactaccagGTGAACTATGGAAATTTCATGCATGGATTGATGAAGGAGAACATCCAGCTCAACCGGAAGGTGCTCTCAGAGCTTTCTATGCATGAGCCCTACAGCTTCA
upper sequence: GRMZM2G028547_T01 (Zea mays), 3'ss of exon 1
lower sequence: AT1G16740.1 (Arabidopsis thaliana), 3'ss of exon 1
gtatgtgaaaaagaatggaattttggcatttgttaggaacatataatcatgctaattttataccatctaataatac-cagcctctcattttaccgttggaagtgctcatagctttcctgcatctgtat-tcttgcatttgactatcagGTGAATTATGGCAACTTTATCCATGGATTAATGAAGGAGAACATCCAACTCAACAGGAAGGTGCTCTCAGAGCTGTCGATGCATGAACCTTACAGCTTTA
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------------------------------------------gtaa-caagctaaatatatgctatt--ataatactctgtttcttttgaataagatggaaatga-catgtttgattggaatcctaacatctaaaacttga--aacagGTGAACTACGGGAACTTCATCCATGGACTGATGAAGGAGAACATCCAGCTGAACCGCAAAGTCCTCTCTGAGTTATCTATGCATGAACCTTACAGTTTCA
upper sequence: GRMZM2G028547_T01 (Zea mays), 3'ss of exon 1
lower sequence: Vv03s0017g01790.t01 (Vitis vinifera), 3'ss of exon 2
gtatgtgaaaaagaatggaattttggcatttgttaggaacatataatcatgctaattttataccatctaataataccagcctctcattttaccgttggaagtgctcatagctttcctgcatctgtattcttgcatttgactatcagGTGAATTATGGCAACTTTATCCATGGATTAATGAAGGAGAACATCCAACTCAACAGGAAGGTGCTCTCAGAGCTGTCGATGCATGAACCTTACAGCTTTA
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-------------------------------gttctgaaaatata-----ggaggcttt----ccttcaataacagta--tacgtaagctagaatttga----cttatttgtttccttcgttttctaccttggtcttgtctcacagGTTAATTACAATAACTTTATACATGGGTTGATGAAGGAGAACATCCAGCTGAACAGGAAAGTTCTCTCAGAGCTGTCTATGCATGAACCTTACACCTTCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ccgttggaagtgctcatagctttcctgcatctgtattcttgcatttgactatcagGTGAATTATGGCAACTTTATCCATGGATTAATGAAGGAGAACATCCAACTCAACAGGAAGGTGCTCTCAGAGCTGTCGATGCATGAACCTTACAGCTTTA
atttgac putative branch site (score: 4)
tattctt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtgaaaaagaatggaattttggcatttgttaggaacatataatcatgctaattttataccatctaataataccagcctctcattttaccgttggaagtgctcatagctttcctgcatctgtattcttgcatttgactatcagGTGAATTATGGCAACTTTATCCATGGATTAATGAAGGAGAACATCCAACTCAACAGGAAGGTGCTCTCAGAGCTGTCGATGCATGAACCTTACAGCTTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCT