Sequence
atgc intronic sequence ATGC exonic sequence...ataatctgagttaaacgggcctttgtaatggtttttgtgaattaattgaattggattgttgtgttgatttcgtatttacaattttttttttttttgccagACTTATATGTTTAAGCTTATGAACAGTAGTGGCGTCACTGAATCCGGAGAGAGCGAGAAGGTTTTGTTGTTGATGGAAAGTGGTGTTAGATTGCATACCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0077g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os12g37720.1 (Oryza sativa), 3'ss of exon 1
ataatctgagttaaacgggcctttgtaa-tggtttttgtgaattaattgaattggattgtt--gtgttgatttcgtatttacaattttt-tttttttttgc-cagACTTATATGTTTAAGCTTATGAACAGTAGTGGCGTCACTGAATCCGGAGAGAGCGAGAAGGTTTTGTTGTTGATGGAAAGTGGTGTTAGATTGCATACCA
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--attct---ttaagtgtgtttctgttgctgagcaaccgcaaaaggttctactgcattctacaaagctgtttttctaactatcatttgtatatgcacttgcacagACATATCTTTTCAAGCTGATGAACAGCAGTGGAATCACTGAGTCAGGGGAAAGCGAGAAGGTTTTGTTGCTGATGGAAAGTGGTGTTAGGCTGCATACCA
upper sequence: Vv05s0077g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G058970_T01 (Zea mays), 3'ss of exon 1
ataatctgagttaaacgggcctttgtaatggtttttgtgaattaattgaattggattgttgtgttgatttcgtatttaca--attttttttttttttgccagACTTATATGTTTAAGCTTATGAACAGTAGTGGCGTCACTGAATCCGGAGAGAGCGAGAAGGTTTTGTTGTTGATGGAAAGTGGTGTTAGATTGCATACCA
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-ttggcagtcttatatcg-tatttgtgttttactatatacatgacgatacttgtacagaactacagatgtaattttagtagcatctttctgcatttggacagACATACCTTTTCAAGCTGATGAACAGCAGTGGGATTACTGAATCAGGGGAAAGCGAGAAGGTCTTGTTGCTCATGGAGAGTGGTGTCAGGTTCCACACCA
upper sequence: Vv05s0077g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA09G03670.1 (Glycine max), 3'ss of exon 1
ataatctgagttaaacgggcctttgtaatggtttttgtga-attaattgaattggattgttgtgttgatttcgtatttacaattttttttttttttgccagACTTATATGTTTAAGCTTATGAACAGTAGTGGCGTCACTGAATCCGGAGAGAGCGAGAAGGTTTTGTTGTTGATGGAAAGTGGTGTTAGATTGCATACCA
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-----------------gtactcttcgttcctttttctactattcattctttcactctctttccccaattcaat-tcaactcattttccgctttgtgc-agACCTACGTGTTCAAGCTTATGAACAGCAGTGGAGTTTCCGAATCTGGGGAGAGCGAGAAGGTTCTGCTGCTGATGGAAAGTGGCGTGAGATTGCACACTA
upper sequence: Vv05s0077g00460.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA15G14560.2 (Glycine max), 3'ss of exon 1
ataatctgagttaaacgggcctttgtaatggtttttgtgaattaattgaattggattgttgtgttgatttcgtatttacaattttttttttttttgccagACTTATATGTTTAAGCTTATGAACAGTAGTGGCGTCACTGAATCCGGAGAGAGCGAGAAGGTTTTGTTGTTGATGGAAAGTGGTGTTAGATTGCATACCA
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------------------gtactcctcattctttttct--accattcattctttcttgcactttctttccccaattcaattcattttccgctttgtgcagACCTACGTGTTCAAGCTGATGAACAGCAGTGGAGTATCGGAATCGGGCGAGAGCGAGAAGGTTCTTCTGCTGATGGAAAGTGGCGTGAGATTGCACACTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttgaattggattgttgtgttgatttcgtatttacaattttttttttttttgccagACTTATATGTTTAAGCTTATGAACAGTAGTGGCGTCACTGAATCCGGAGAGAGCGAGAAGGTTTTGTTGTTGATGGAAAGTGGTGTTAGATTGCATACCA
tgttgat putative branch site (score: 4)
tttacaattttttttt putative PPT
tgttgatttcgtattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ataatctgagttaaacgggcctttgtaatggtttttgtgaattaattgaattggattgttgtgttgatttcgtatttacaattttttttttttttgccagACTTATATGTTTAAGCTTATGAACAGTAGTGGCGTCACTGAATCCGGAGAGAGCGAGAAGGTTTTGTTGTTGATGGAAAGTGGTGTTAGATTGCATACCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - gcctttg
- - - - - - - - - - - - - - - - - - - - - -aattgaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - tgttgtg