Sequence
atgc intronic sequence ATGC exonic sequence...agtagtcccaacaactagtataaataagatgttatttggaagaagaagttggcaaactgtgtagtctgatattgattttgattttatctttgttttacagTTTGCCCCACTACACTCAAAAGAATCTGCAGACAACATGGGATATCAAGATGGCCGTCCCGCAAGATCAACAAGGTGAACAGATCACTGAGGAAGATACA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0094g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os11g16290.1 (Oryza sativa), 3'ss of exon 4
--------------------------------------------------------------------------------------agtagtcccaacaactagtataaata-agatgttatttggaagaagaagttggcaaactgtgtagtct--gatattgattttgatt-ttatctttgttttacagTTTGCCCCACTACACTCAAAAGAATCTGCAGACAACATGGGATATCAAGATGGCCGTCCCGCAAGATCAACAAGGTGAACAGATCACTGAGGAAGATACA
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gtaatttgtttatactctcatgatctttttctgatttattcttatagaattcaattaattcctactaaattagttctgttttgtatgaaaagcactactgctaatacaaatgtagaaacaaactaatccaattgtgtcataggaagaggagcttacaggattttttttattccttgctgttacgttgcagTTTGTCCTACTACGCTGAAAAGGATATGCAGACAACATGGAATATCAAGGTGGCCATCTCGTAAGATAAAGAAGGTAAACCGATCCCTAAAGAAGATCCA
upper sequence: Vv05s0094g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G031398_T01 (Zea mays), 3'ss of exon 6
------------------------------------------agtagtcccaacaact--agta-taaataagatgttatt-tggaagaagaagttggcaaactgtgtagtc-tgatattga----ttttgat-tttatctttg-----ttttacagTTTGCCCCACTACACTCAAAAGAATCTGCAGACAACATGGGATATCAAGATGGCCGTCCCGCAAGATCAACAAGGTGAACAGATCACTGAGGAAGATACA
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gtgagccctactgtactgttatgaagtcccagttaaatctaattttgctgcgacattcacagtactgaagataatgccatcaccgcagctgaatttcttaggttaggtgattatgaaatgaactacttctgacacttgcctataaacaccattgcagTTTGTCCAACAACTTTGAAACGAATATGCAGACAACATGGAATTTCCAGATGGCCATCTCGAAAGATAAACAAGGTCAACCGTTCACTGAAGAAGATCGA
upper sequence: Vv05s0094g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA12G05390.1 (Glycine max), 3'ss of exon 6
--agtagtcccaacaactagtataaataagatgttatttggaagaagaagttggcaaactgtgtagtctgatattgattttgattttatctttgtttta-cagTTTGCCCCACTACACTCAAAAGAATCTGCAGACAACATGGGATATCAAGATGGCCGTCCCGCAAGATCAACAAGGTGAACAGATCACTGAGGAAGATACA
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tctatgattttatcttaaagt-tatgttaaacatt-tctgaaaggtaattctagttaacaaagacggatt-tgtcgttaacaaacatttttttatttgaacagTTTGCCCAACAACTCTAAAAAGGATATGCAGGCAACATGGAATTTCAAGATGGCCATCCCGCAAGATAAATAAAGTGAACCGTTCTTTGAAGAAGATACA
upper sequence: Vv05s0094g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA11G13390.1 (Glycine max), 3'ss of exon 4
agtagtcccaacaactagtataaat--aagatgttatttggaagaagaagttggcaaactgtg-tagtctgatattgattttgattttatctttgttttacagTTTGCCCCACTACACTCAAAAGAATCTGCAGACAACATGGGATATCAAGATGGCCGTCCCGCAAGATCAACAAGGTGAACAGATCACTGAGGAAGATACA
| | | | ||| | || |||| || | || ||| | | | || | || | ||| | | | | |||| || ||||||||||| || || || ||||| || |||||||||||||| || ||||||||||| ||||| ||||| || || ||||| | || | | |||||||||
tatgattttatcttaaagttaagatgtaagacatt-tctgaaaggtaattctagttaataaagacagatt--tatcgttaacaaacatttcttctttgaacagTTTGCCCAACAACTCTAAAAAGGATATGCAGACAACATGGAATTTCAAGATGGCCATCCCGAAAGATAAATAAAGTGAATCGTTCGTTAAAGAAGATACA
upper sequence: Vv05s0094g00020.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA13G42160.1 (Glycine max), 3'ss of exon 6
agtagtcccaacaactagtataaata--agatgttatttggaagaagaagttggcaaactgtgt--agtctgatattgattttgattttatctttgttttacagTTTGCCCCACTACACTCAAAAGAATCTGCAGACAACATGGGATATCAAGATGGCCGTCCCGCAAGATCAACAAGGTGAACAGATCACTGAGGAAGATACA
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ttcaatttcattgtccaaaaaagatgttcaatatt-tctgaaaggaaattcttgttaattggaaaaagtttattcttaacaaatgtttcttctttgat---cagTTTGCCCAACGACTCTGAAAAGGATATGCAGACAACATGGAATTCCAAGGTGGCCATCCCGCAAGATTAATAAAGTGAATCGATCATTGAAGAAGATACA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagttggcaaactgtgtagtctgatattgattttgattttatctttgttttacagTTTGCCCCACTACACTCAAAAGAATCTGCAGACAACATGGGATATCAAGATGGCCGTCCCGCAAGATCAACAAGGTGAACAGATCACTGAGGAAGATACA
ttttatctttgtttt CT-rich tract
atattgattttgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
agtagtcccaacaactagtataaataagatgttatttggaagaagaagttggcaaactgtgtagtctgatattgattttgattttatctttgttttacagTTTGCCCCACTACACTCAAAAGAATCTGCAGACAACATGGGATATCAAGATGGCCGTCCCGCAAGATCAACAAGGTGAACAGATCACTGAGGAAGATACA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - -ccaacaa
- - - - - - - - - - - aataaga
- - - - - - - - - - - - - - - - - - -ggaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - ggcaaac