Sequence
atgc intronic sequence ATGC exonic sequence...ttgtactagcctctattgtctggggctgttaaggtgattagtgaaagcctgagatacgtatatgttaatgagttttacttgtgatccttatttgtttcagTGGTGTAAGACCATTTGGAGTATCGCTGTTGATTGCTGGGTATGATGACAATGGCCCACAGTTGTATCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G085243_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g42320.1 (Oryza sativa), 3'ss of exon 5
--ttgtactagcctctattgtctggggctgttaaggtgattagtgaaagcctgagatacgtatatgttaatgagttttacttgtgatc--cttatttgtttcagTGGTGTAAGACCATTTGGAGTATCGCTGTTGATTGCTGGGTATGATGACAATGGCCCACAGTTGTATCAG
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gattggtgaatcctgaagtacagttcactccttaaa-gat--atgaatatatgatgtaaccgaatttctgag-gcatgactcacggccaacttgtttgttgcagTGGTGTAAGACCATTTGGAGTATCATTATTGATTGCCGGGTACGATGACAATGGCCCACAGCTGTATCAG
upper sequence: GRMZM2G085243_T01 (Zea mays), 3'ss of exon 7
lower sequence: LOC_Os02g42320.4 (Oryza sativa), 3'ss of exon 6
--ttgtactagcctctattgtctggggctgttaaggtgattagtgaaagcctgagatacgtatatgttaatgagttttacttgtgatc--cttatttgtttcagTGGTGTAAGACCATTTGGAGTATCGCTGTTGATTGCTGGGTATGATGACAATGGCCCACAGTTGTATCAG------------------------------
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gattggtgaatcctgaagtacagttcactccttaaa-gat--atgaatatatgatgtaaccgaatttctgag-gcatgactcacggccaacttgtttgttgcagTGGTGTAAGACCATTTGGAGTATCATTATTGATTGCCGGGTACGATGACAATGGCCCACAGCTGTATCAGGTATGCAGATAGCTGCGTGATAGGGGCTCT
upper sequence: GRMZM2G085243_T01 (Zea mays), 3'ss of exon 7
lower sequence: Vv01s0011g01960.t01 (Vitis vinifera), 3'ss of exon 6
--ttgtactagcctctattgtctggggctgttaaggtgattagtgaaagcctgagatacgtatatgttaatgagttttacttgtgatccttatttgtttcagTGGTGTAAGACCATTTGGAGTATCGCTGTTGATTGCTGGGTATGATGACAATGGCCCACAGTTGTATCAG
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attttaagcaatgcataaacctctgaattacagaagca--tatagaaaagctcaattatttaaatgaagtttgatatcttttctttcttcttattcctatagTGGTGTAAGGCCCTTTGGAGTATCACTGTTGGTTGCTGGTTTTGATGACAATGGTCCACAATTGTACCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agcctgagatacgtatatgttaatgagttttacttgtgatccttatttgtttcagTGGTGTAAGACCATTTGGAGTATCGCTGTTGATTGCTGGGTATGATGACAATGGCCCACAGTTGTATCAG
tgttaat putative branch site (score: 3)
tccttatttgtttc putative PPT
tatatgttaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttgtactagcctctattgtctggggctgttaaggtgattagtgaaagcctgagatacgtatatgttaatgagttttacttgtgatccttatttgtttcagTGGTGTAAGACCATTTGGAGTATCGCTGTTGATTGCTGGGTATGATGACAATGGCCCACAGTTGTATCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT