Sequence
atgc intronic sequence ATGC exonic sequence...ctattgtttggttgtaataagggcgtagttttaatggtatatgcagatcttggttacttgctaaagaattgtgctcccttcttcaatgtccattttgcagTTTGAGCCTGAGACATCCAGTGCCATGGGCTTTGGCTTTAGGTGTGGGTTCTTGGGTCTTCTCCATATGGAAATCATTCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GRMZM2G003157_T02 (Zea mays), 3'ss of exon 3
ctattgtttggttgtaataagggcgtagttttaatggta--tatgcagatcttggttacttgc-taaagaattgtgctcccttcttcaatgtccattttgcagTTTGAGCCTGAGACATCCAGTGCCATGGGCTTTGGCTTTAGGTGTGGGTTCTTGGGTCTTCTCCATATGGAAATCATTCAG
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---tgcatctgttctcatttggattctgtaatattggttattctttatgcattggtattttgtatgatacttcattttctctaaatccatgccattaatgcagTTTGAACCAGAATCTTCTAGTGCCATGGGGTTTGGCTTCAGATGTGGGTTCCTTGGTCTTCTCCATATGGAAATAGTTCAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G38360.1 (Glycine max), 3'ss of exon 12
ctattgtttggttgtaataagggcgtagttttaatggtatatgcagatcttgg--ttacttgctaaagaattgtgctcccttcttcaatgtccattttgcagTTTGAGCCTGAGACATCCAGTGCCATGGGCTTTGGCTTTAGGTGTGGGTTCTTGGGTCTTCTCCATATGGAAATCATTCAG
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--gtttttttccttaaatatccatgtttcttacagtcaagctgacaatggtggggttagtgattaattattcaaagatttcattctcttttctggtttacagTTTGAACCTGAGACATCGAGTGCCATGGGATTTGGCTTTAGATGTGGGTTTCTGGGCCTTCTTCATATGGAAATTGTTCAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA06G16700.1 (Glycine max), 3'ss of exon 12
ctattgtttggttgtaataagggcgtagttttaatggtatatgcagatcttggt-----tacttgctaaagaattgtgctcccttcttcaatgtccattttgcagTTTGAGCCTGAGACATCCAGTGCCATGGGCTTTGGCTTTAGGTGTGGGTTCTTGGGTCTTCTCCATATGGAAATCATTCAG
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---tttttttttcctaa-atatccatgtttcttacagt-caagctgacaatggtaggattagtgactgattattcgaagatttcattatcttttctggtttacagTTTGAACCTGAGACATCAAGTGCCATGGGATTTGGCTTTAGATGTGGGTTTCTGGGCCTTCTTCATATGGAAATTGTTCAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: GLYMA04G33480.1 (Glycine max), 3'ss of exon 6
ctattgtttggttgtaataagggcgtagttt-taatggtatatgcagatcttgg-ttacttgctaaagaattgtgctcccttcttcaatgtccattttgcagTTTGAGCCTGAGACATCCAGTGCCATGGGCTTTGGCTTTAGGTGTGGGTTCTTGGGTCTTCTCCATATGGAAATCATTCAG
|| ||| | |||| || || || | | || | || ||| | ||| | | | | || ||| |||||||| ||||||||||| ||||||||||| |||||||||| |||||||| |||| ||||| ||||||||||| |||||
--gtttttttccttaaatatccatgtttcttatagtcaaactgacaatggtggggttagtgattaattattcaaagatttcattcttttttctggtttacagTTTGAACCTGAGACATCGAGTGCCATGGGATTTGGCTTTATATGTGGGTTTCTGGGCCTTCTTCATATGGAAATTGTTCAG
upper sequence: Vv07s0031g03050.t01 (Vitis vinifera), 3'ss of exon 12
lower sequence: AT5G08650.1 (Arabidopsis thaliana), 3'ss of exon 12
--ctattgtttggttgtaataagggcgtagttttaatggtatatgcagatcttggttacttgctaaagaattgtgctcccttcttcaatgtccattttgcagTTTGAGCCTGAGACATCCAGTGCCATGGGCTTTGGCTTTAGGTGTGGGTTCTTGGGTCTTCTCCATATGGAAATCATTCAG
||| |||| | |||| | | | | || | | | ||| | | | | || | | ||| | | || |||||||||||||||| || || ||||||||||| ||||||||||| || ||||| |||||||||||||| |||||||| | |||
atgtatc-tttgttaaaaatattcacatttggtctaaggagcgtatacgttagcattaacatatctataggtttgtcctcaactt-ggtttttatcctgcagTTTGAGCCTGAAACTTCGAGTGCCATGGGATTTGGCTTTAGATGCGGGTTTTTGGGTCTTCTCCACATGGAAATTGTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatcttggttacttgctaaagaattgtgctcccttcttcaatgtccattttgcagTTTGAGCCTGAGACATCCAGTGCCATGGGCTTTGGCTTTAGGTGTGGGTTCTTGGGTCTTCTCCATATGGAAATCATTCAG
tgctaaa putative branch site (score: 2)
tccatttt putative PPT
taaagaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctattgtttggttgtaataagggcgtagttttaatggtatatgcagatcttggttacttgctaaagaattgtgctcccttcttcaatgtccattttgcagTTTGAGCCTGAGACATCCAGTGCCATGGGCTTTGGCTTTAGGTGTGGGTTCTTGGGTCTTCTCCATATGGAAATCATTCAG
- - tgtttgg
- - - - - - - -aataagg
- - - - - - - - - - - - - - - - - - - -tatgcag
- - - - - - - - - - - - - - - - - - - - - - - - - - - tacttgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -taaagaa