Sequence
atgc intronic sequence ATGC exonic sequencegtaagattttctgtcaactcttgtgatctaacttttctgctgaatttttacagagcccaaattattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: LOC_Os01g24470.2 (Oryza sativa), 3'ss of exon 6
gtaagattttctgtcaactcttgtgatctaacttttctgctgaatttttacagagcccaaattattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
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-------------gtaatcctaacgtgcccatctttcaagcaactaactatacatcgcag-taatggaaaataacaggaaattttg----cttacagGTTCGACTTGAGCACATTCTTGAGAGGATATCATTGATTTCTGATGCTGCAAGCACCGAGCGTCCCTCTCAGATCACGGATTATTTGTATATTGGTGGTG
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G061684_T01 (Zea mays), 3'ss of exon 7
gtaagattttctgtcaactcttgtgatctaacttttctgctgaatttttacagagcccaaattattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
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-------------gtaaatctaa--atgtacactctgtactaactacgtgtacacattaattgaacc------tatcgagcaattctgttgtta--gGTTCGACTTGAGCACATTCTCGAGAGGATATCTTTGATCTCTGATGCTGCAAGTACTGAGCGTCCATCACAGATCACAGATTATCTGTATATTGGTGGTG
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GRMZM2G139892_T01 (Zea mays), 3'ss of exon 3
gtaagattttctgtcaactcttgtgatctaacttttctgctgaatttttacagagcccaaattattccttttctttccatgttttttgat--cttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
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----------------------gtaagtcaggatatac-ctaaactt---cgaactccattttaatgaattagtgaacttgataatacatcacttgcagGTGCGTCTTGAACACATCATTGAAAGGATAGCCTTGATTTCTGATGCTGCAAATACAGAACGACCTTCTCTTGTTGTCAACAACTTGTTCATAGGTGGGG
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA04G37730.1 (Glycine max), 3'ss of exon 8
gtaagattttctgtcaactcttgtgatctaacttttctgctgaattt-ttacagagcccaaattattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
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gtatgccaattta--aattagtatg-cagaaataatatgttggactcattatggaggatacatgaataaagaatttac----tccattgacctt-tagGTCAGACTTGAGCATATCCTTGAGAGGATTGCCTTGATATCTGAGGCTGCAAATACAGAGAGACCATCTGCGGTTACAAATAGTCTGTTCATTGGTGGAG
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA08G01160.1 (Glycine max), 3'ss of exon 9
gtaagattttctgt-caactcttgtgatctaacttttctgctgaatttttacagagcccaaattattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
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gttaccttcactttattatattaaaaaattaaatataatagactcctttcattcatgagggatttccatttatgatgcattatctttttaactttcagGTCAGACTTGAGCATATTCTCGAGAGAATTGCATTGATATCAGACGCTGCAAGTACTGAGAAACCTTCAGCAGTGACAAGTAGTCTGTTCATTGGTGGAG
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: GLYMA05G38500.1 (Glycine max), 3'ss of exon 6
gtaagattttctgt-caactcttgtgatctaacttttctgctgaatttttacagagcccaaattattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
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gttaccttcactttattatattcaaaactaaaatataataggctcctttcatttatgagggatttccattcataatgcattatcttttcaactttcagGTTAGACTTGAGCATATTCTCGAGAGAATTGCATTGATATCAGATGCTGCAAGTACTGAGAAACCTTCAGCAGTGACAAGTAGTCTGTTCATTGGTGGAG
upper sequence: Vv17s0000g00360.t01 (Vitis vinifera), 3'ss of exon 8
lower sequence: AT5G23720.2 (Arabidopsis thaliana), 3'ss of exon 8
-------------gtaagattttctgtcaactct--tgtgatctaacttttctgctgaattttt-----acagagcccaaa--ttattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
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gtatcatgaagttttattatttccttttatcctgaatatgatcttcattatataatatagtttttggcaactgaactcaaacattgtctctcttgtttgcattctccttgata--acagGTTAGACTTGAGCATATTCTTGAGAGGATATCATTGATTAGCAAAGCTGCTAATACAGAGAAACCATCAATGATACAAGAAAATCTTTTTATCGGGGGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatttttacagagcccaaattattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
ttttgat putative branch site (score: 4)
ttccttttctttccat CT-rich tract
aaattattcctttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagattttctgtcaactcttgtgatctaacttttctgctgaatttttacagagcccaaattattccttttctttccatgttttttgatcttacagGTCAGGCTTGAGCACATTCTTGAGAGGATAGCATTGATATCTGATGCTGCAAATACAGAGCGACCATCTTCAATTACAGCGAGTCTCTTCATTGGTGGGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG