Sequence
atgc intronic sequence ATGC exonic sequencegttcatgaatgtgatgtcctcattccatgcgcattaggtggagttctcaacaagtatgtgacatgaccacttagctgtgaaccttataaactctcatatttttgggtccaataacttaatcaaactatgtttccttcttgccctgcattctgatatattgcaaagGGATAATGCTGCTCATGTTAAAGCAAAATTTATAATAGAAGCTGCAAATCATCCCACTGATCCAGAGGCTGACGAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os04g45970.1 (Oryza sativa), 3'ss of exon 6
gttcatgaatgtgatgtcctcattccatgcgcattaggtggagttctcaacaagtatgtgacatgaccacttagctgtgaaccttataaactctcatatttttgggtc--caataactta-atcaa-actatgtttccttcttgccctgcattctgatatattgcaaagGGATAATGCTGCTCATGTTAAAGCAAAATTTATAATAGAAGCTGCAAATCATCCCACTGATCCAGAGGCTGACGAG
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-----------------------------------------------------------------gttacat-gttgaagaacctattttatctgattattctagttcaacagtagtatgcaccaagaaaaaaatagccaatttacatataat-tgatcttctg--aagGGAAAATGCACCTGATGTGAAGGCCAAATTTATAATTGAAGCTGCTAATCATCCAACTGATCCAGAAGCTGACGAG
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G427097_T01 (Zea mays), 3'ss of exon 6
gttcatgaatgtgatgtcctcattccatgcgcattaggtggagttctcaacaagtatgtgacatgaccacttagctgtgaaccttataaactctcatatttttgggtccaataacttaatcaaactatgtttccttcttgccctgcattctgatatattgcaaagGGATAATGCTGCTCATGTTAAAGCAAAATTTATAATAGAAGCTGCAAATCATCCCACTGATCCAGAGGCTGACGAG
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----------------------------------------------------gttttgttttgtgaatagactgcttttgatttg------tttcctagctctgttgtagatg---taccccaggattgttgatttctggtaattggttg----gttttgcgcagGGATAATGCACCAGACGTGAAGGCCAAATTTGTAATCGAAGCTGCTAACCATCCAACTGATCCAGAGGCAGACGAG
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA01G41310.1 (Glycine max), 3'ss of exon 6
gttcatgaatgtgatgtcctcattccatgcgcattaggtggagttctcaacaagtatgtgacatgaccacttagctgtgaaccttataaactctcatatttttgggtccaataacttaatcaaactatgtttccttcttgccctgcattctgatatattgcaaagGGATAATGCTGCTCATGTTAAAGCAAAATTTATAATAGAAGCTGCAAATCATCCCACTGATCCAGAGGCTGACGAG
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------------------------gtatgtttattatctaagtcacgtatcta-tgttcatcagaaatcatcagcattgaagttatctaacaagtacatttt---gcttgttcatttaa---agttgtatttatttttaattttg-gctaaacttaattttgtagGGAAAATGCTGCTGATGTGAAAGCGAAATTTATAATAGAAGCTGCAAATCATCCAACTGACCCTGATGCTGATGAG
upper sequence: Vv00s1491g00010.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA17G15740.1 (Glycine max), 3'ss of exon 7
gttcatgaatgtgatgtcctcattccatgcgcattaggtggagttctcaacaagtatgtgacatgaccacttagctgtgaaccttataaactctcatatttttgggtccaataacttaatcaaactatgtttccttcttgccctgcattctgatata--ttgcaaagGGATAATGCTGCTCATGTTAAAGCAAAATTTATAATAGAAGCTGCAAATCATCCCACTGATCCAGAGGCTGACGAG
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--------------------------------------------------------------ctccttatttagtttt--atctttc---ccattatacttttaagtttaacttaacactttggatctgaagaactacaacctaattttgggatattattcttgaagGGAAAATGCTGCTGATGTGAAGGCAAAATTTATAATAGAAGCAGCAAATCACCCCACTGACCCTGATGCGGATGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ataacttaatcaaactatgtttccttcttgccctgcattctgatatattgcaaagGGATAATGCTGCTCATGTTAAAGCAAAATTTATAATAGAAGCTGCAAATCATCCCACTGATCCAGAGGCTGACGAG
ttaatcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttcatgaatgtgatgtcctcattccatgcgcattaggtggagttctcaacaagtatgtgacatgaccacttagctgtgaaccttataaactctcatatttttgggtccaataacttaatcaaactatgtttccttcttgccctgcattctgatatattgcaaagGGATAATGCTGCTCATGTTAAAGCAAAATTTATAATAGAAGCTGCAAATCATCCCACTGATCCAGAGGCTGACGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC