Sequence
atgc intronic sequence ATGC exonic sequencegttagttattcaaatttttattggaattcttgtatataggatggttcactatcaatattgatagaagaaaagctgctcaggacaagtcactaatcagagaattttttcaatgaccatcctcacaaatagaaaaatatatcattcttgtagGCCTACCATCTCCATCAGGAAGAGCTCAGAAAGCTGCTGAAGTTGGTCTTCACCGGAGTCAAACAATAGGTCAAAGAATTATGGGAAATATGATGGACAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 28
lower sequence: LOC_Os07g37750.1 (Oryza sativa), 3'ss of exon 25
gttagttattcaaatttttattggaattcttgtatataggatggttcactatcaatattgatagaagaaaagctgctcaggacaagtcactaatcagagaattttt-tcaatgaccatcctcacaaatagaaaaatatatcattcttgtagGCCTACCATCTCCATCAGGAAGAGCTCAGAAAGCTGCTGAAGTTGGTCTTCACCGGAGTCAAACAATAGGTCAAAGAATTATGGGAAATATGATGGACAA---------
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--------------------------------------gtgtggtagtcctgaaatatccattaa-------ttgttttatacaa-----tgacaagtgcttccatatgaactggaatactgataattaacctaattctgtctttctctagGTTTGCCATCTCCATCAGGGAGAGCACAAC------CTGCAGTT--TCCCCAC-GGGGTCAGACCTTTGGACAAAGAATTATGGGGAATATGATGGACAATCTTTTGGT
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 28
lower sequence: GLYMA13G17610.1 (Glycine max), 3'ss of exon 28
gttagttattcaaatttttattggaattcttgtatataggatggttcactatcaatattgatagaagaaaagctgctcaggacaagtcactaatcagaga-attttttcaatgaccatcctcacaaatagaaaaatatatcattcttgtagGCCTACCATCTCCATCAGGAAGAGCTCAGAAAGCTGC---TGAAGTTGGTCTTCACCGGAGTCAAACAATAGGTCAAAGAATTATGGGAAATATGATGGACAA
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------------------------------------------aattttttaacttgatccgaaccatggat-cggttcggattcactgggttatcggaaatgaattttgcttgatggt--------attaagaagttgtttattattgtagGCCTTCCATCTCCATCAGGAAGAACTCCCAAAGCTGCAGATGGAGAAGGTTTCCAGCGGAGCCAAACCTTAGGTCAACGGATTATGGGAAATATGGAAAA---
upper sequence: Vv11s0016g00170.t01 (Vitis vinifera), 3'ss of exon 28
lower sequence: GLYMA17G04890.1 (Glycine max), 3'ss of exon 29
gttagttattcaaatttttattggaattcttgtatataggatggttcactatcaatattgatagaagaaaagctgctcaggacaagtcactaatcagagaattttttcaatgaccatcctcacaaatagaaaaatatatcattcttgtagGCCTACCATCTCCATCAGGAAGAGCTCAGAAAGCTGC---TGAAGTTGGTCTTCACCGGAGTCAAACAATAGGTCAAAGAATTATGGGAAATATGATGGACAA
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------------------tattggatgtgtc-taaagatgatgtggtagagttg-tgtctatacaagactttctcttaaatgatacccaagaacaaatgagtttgcttgatggt-----------attaagGAATTGTTTATTATTGTAGGCCTTCCATCTCCATCAGGAAGAACTCCCAAAGCTGCAGATGGAGGAGGTTTCCAGCGGAGCCAAACCTTAGGTCAACGGA---------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agagaattttttcaatgaccatcctcacaaatagaaaaatatatcattcttgtagGCCTACCATCTCCATCAGGAAGAGCTCAGAAAGCTGCTGAAGTTGGTCTTCACCGGAGTCAAACAATAGGTCAAAGAATTATGGGAAATATGATGGACAA
tcctcac putative branch site (score: 2)
tcattctt putative PPT
aaatagaaaaatatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttagttattcaaatttttattggaattcttgtatataggatggttcactatcaatattgatagaagaaaagctgctcaggacaagtcactaatcagagaattttttcaatgaccatcctcacaaatagaaaaatatatcattcttgtagGCCTACCATCTCCATCAGGAAGAGCTCAGAAAGCTGCTGAAGTTGGTCTTCACCGGAGTCAAACAATAGGTCAAAGAATTATGGGAAATATGATGGACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA