Sequence
atgc intronic sequence ATGC exonic sequence...ttttttttaaattttttaaagactttaattaggaaaaagaataggaagaaggatgttattttgatcttttcttttttccttaattctattttgaatacagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0104g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g05080.1 (Oryza sativa), 3'ss of exon 1
------ttttttttaaattttttaaagactttaattaggaaaaagaataggaagaaggatgttattttgatcttttcttttttccttaattctattttgaatacagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
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atacctgtggactgagatgtaccattatcaataaattcaaatgcccatattagcaatgctggtgtctcactctaatttcgtctcctt--ttctgtttct----tagATTTAATGCCAGAAATATGCTAGAGAAACTCAGAAACAGAAGAGTTGTATTTGTTGGGGATTCGATTGCAAGAAACCAATGGGAGTCTCTGCTTTGTATG
upper sequence: Vv07s0104g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G004445_T01 (Zea mays), 3'ss of exon 1
ttttttttaaattttttaaagactttaattaggaaaaagaatagga-------agaaggat-gttattttgatcttttcttttttccttaattctattttgaat--acagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
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---tttataa-----ctgaagacc--aatctggaagatccacattaccactctagcataatcgttaatctttttctctgactcggtcgtattattcctttgatttgttagATTTGATGCCAAAGGCATGCTGGAGAAGCTACGGAACAAAAGAGTGGTTTTTGTCGGTGATTCAATTGGAAGGAACCAATGGGAGTCTCTACTTTGCATG
upper sequence: Vv07s0104g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G025250_T01 (Zea mays), 3'ss of exon 2
ttttttttaaattttttaaagactttaattaggaaaaag--aataggaagaaggatgttattttgatcttttcttttttccttaattctattttgaat--acagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
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----tttataactgaaggacaatctgaaagatccacatttccactctagcataatcactaatctttttctctgacttggtcatattctttctttgatttgttagATTTGATGCCAAAAGCATGCTGGAGAAGCTACGAAACAAAAGAGTGGTTTTTGTTGGTGATTCAATTGGAAGGAACCAATGGGAGTCTCTACTTTGTATG
upper sequence: Vv07s0104g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA03G30910.1 (Glycine max), 3'ss of exon 1
ttttttttaaattttttaaagactttaattaggaaaaagaataggaagaaggatgttatt---ttgatcttttc-------ttttttccttaattctattttgaatacagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
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----------atcttgagtagcattttgcttgtgcatacaataatatgttaggttcttttagcttggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAAGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAACCAATGGGAATCACTGCTTTGTATG
upper sequence: Vv07s0104g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA19G33730.1 (Glycine max), 3'ss of exon 1
ttttttttaaattttttaaagactttaattaggaaaaagaa--taggaagaaggatgttattttgatcttttc-------ttttttccttaattctattttgaatacagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
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---------acatctcgagtagcattgcttgggcatacaatgctatgttatgttcttttagctcggttgttggaatgaaatataatgagtgactgtactcttgcaacagATTTGATGCAAGGAATATGTTGGAAAAGCTACGGGACAAGCGACTAGTGTTTGTTGGTGATTCGATTGGAAGGAATCAATGGGAATCACTCCTTTGTATG
upper sequence: Vv07s0104g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G19160.1 (Arabidopsis thaliana), 3'ss of exon 1
----------------------------------------------------ttttttttaaattttttaaagact--------ttaattaggaaaaagaa---taggaagaaggatgtta-ttttgatct---tttcttt---tttccttaattctattttg-aata---cagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
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gtaaatgtttcattttctctctttgtttgatgttctgggattagaaatgttatgtttaggaaatattgtatggcatgagtagagtaagttaggaggaagaactttagaaccatatgtgttacttttgaattcagttacttaaagcttactcatttttgttatggaatgtatcagATTTGATGCTAAGTTGATGTTGGAGAAGCTAAGGAACAAGCGGCTAGTGTTTGTAGGAGACTCAATTGGAAGAAACCAATGGGAGTCTCTTCTTTGTATG
upper sequence: Vv07s0104g00120.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT3G06080.1 (Arabidopsis thaliana), 3'ss of exon 1
ttttttttaaattttttaaagactttaattaggaaaaagaataggaagaaggatgttat-tttgatcttttcttttttccttaattctattttgaatacagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
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tggaatacttgattgcagatatttataatagagaattcagttttgtcttgggaggcagtacttagctgactctattttcctgttttgaaaactgaat-tagATTTGATGCAAAACTGATGCTGGAGAAACTCCGGGACAAGCGGCTTGTGTTTGTTGGCGATTCAATAGGAAGAAACCAGTGGGAGTCTCTACTTTGTCTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagaaggatgttattttgatcttttcttttttccttaattctattttgaatacagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
ccttaat putative branch site (score: 4)
ttttgatcttttcttt CT-rich tract
ttattttgatcttttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ttttttttaaattttttaaagactttaattaggaaaaagaataggaagaaggatgttattttgatcttttcttttttccttaattctattttgaatacagATTTGATGCAAACGTCATGTTGGAGAAGCTGAGGAACCGGCGGGTTGTGTTTGTTGGTGATTCCATTGGAAGAAACCAATGGGAATCCCTTCTTTGCATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - aaaagaa
- - - - - - - - - - - - - - - - - - - - - -ggaagaa