Sequence
atgc intronic sequence ATGC exonic sequencegtatcaattttaatttatgctctttttattttgttcatgaactactgtgttggatttcaattatactctaaattattttttttgcaaccacttggacatgttaaccatgttttaattttctcttctccatagATTGGAATTATTGATCCTGATTGCAGATTAATTGGACTTCATTTATATGATGGATTATTTAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GRMZM2G402002_T01 (Zea mays), 3'ss of exon 5
-------------------------------------------------gtatcaattttaatttatgctctttttattttgttcatgaactactgtgttggattt----caattatactctaaattattttttttgcaaccacttggacatgttaaccatgttttaattttctcttctccatagATTGGAATTATTGATCCTGATTGCAGATTAATTGGACTTCATTTATATGATGGATTATTTAAG
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gtgcagaacttttccagtttcaaccccctacatttgaatcattagaatattatggaattttcccttcaat-ttgaaattctaattatccatcattttacagggtttttcgtgaatagagagaacattattttacttggaac-agtaatac-taatggacgcgtctt---tttctttattctatagATTGGAATCATTGACCCTGACTGTAGACTCATTGGTCTTCATCTCTATGATGGCTTATTTAAG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA08G13680.1 (Glycine max), 3'ss of exon 5
-----------gtatcaatttta---atttatgctctttttattttgttcatgaactactgtgttggatttcaattatactc-taaattattttttttgcaaccacttggacat-gttaaccatgttttaatt----ttctcttctccat----agATTGGAATTATTGATCCTGATTGCAGATTAATTGGACTTCATTTATATGATGGATTATTTAAG
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gtatttgaattgttttacttctatctactgataaaactttgatagttataatattctttcagttttgatatttttaacgtttatgctttatctagtctaggatcagttgaaagttgttcaatgcatttcagctgttattccattctctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGATGGTTTGTTTAAA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA05G30530.1 (Glycine max), 3'ss of exon 5
--------------gtatcaattttaatttatgctctttttattttgttcatgaactactgtgttggatttcaattatactc-taaattattttttttgcaaccacttggacat-gttaaccatgttttaattttc--------tcttctccatagATTGGAATTATTGATCCTGATTGCAGATTAATTGGACTTCATTTATATGATGGATTATTTAAG
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gtatttgaattgttttacttatatctactgataaaacttgggtagttatagtattctttcagttttgatatttttaacatttatgctttatctagtctaggatcagttgaaagttgttcaatgcatttcagctgttattccattttctttctgcagATTGGCATTATTGATCCTGATTGTAGGTTGATTGGACTCCACTTGTATGATGGTTTGTTTAAA
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G05420.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatcaattttaatttatgctctttttattttgttcatgaactactgtgttggatttcaattatactctaaattattttttttgcaaccactt---ggacatgttaaccatgttttaattttctctt-ctccatagATTGGAATTATTGATCCTGATTGCAGATTAATTGGACTTCATTTATATGATGGATTATTTAAG
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gtattgaatatcgtc-gtcttgactgtgcatt-tcagagtgcttatatatttactttccttcatcaaaaaatatgcgttgtcattaagggtttggtgggcatgtagcttacctctgatttgacaattgctttgtagATTGGTATAATTGATCCAGATTGTAGATTAATTGGACTCCATCTGTATGACGGCTTGTTCAAG
upper sequence: Vv10s0003g04360.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT4G21100.1 (Arabidopsis thaliana), 3'ss of exon 5
gtatcaattttaatttatgctctttttattttgttcatgaactactgtgttggatttcaattatac---tctaaattattttttttgcaaccact-tg-gacatgtt--aacc-atgttttaattttctctt-ctccatagATTGGAATTATTGATCCTGATTGCAGATTAATTGGACTTCATTTATATGATGGATTATTTAAG
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gtattgagttcagtagtactgcactgtatttt--tcat-agtggctagatttgattttccttcttcagttgtatatgtgctatattgtaacggttatgtggcatgtttgagctgacttctcaatggacactgattttgcagATTGGTATAATTGATCCTGATTGCAGAGTAATTGGTCTGCATCTGTATGACGGCTTGTTTAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttttgcaaccacttggacatgttaaccatgttttaattttctcttctccatagATTGGAATTATTGATCCTGATTGCAGATTAATTGGACTTCATTTATATGATGGATTATTTAAG
tgttttaattttctct CT-rich tract
atgttttaattttct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcaattttaatttatgctctttttattttgttcatgaactactgtgttggatttcaattatactctaaattattttttttgcaaccacttggacatgttaaccatgttttaattttctcttctccatagATTGGAATTATTGATCCTGATTGCAGATTAATTGGACTTCATTTATATGATGGATTATTTAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA