Sequence
atgc intronic sequence ATGC exonic sequencegtaaatgcaaggcaaccttttgggtgcaagcagtactatcttctgttctttcaattacccagttctcatggaatctaatgtaaaattcctggcagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GRMZM2G058870_T01 (Zea mays), 3'ss of exon 3
-------------------------------------gtaaatgcaaggcaaccttttgggtgcaagcagtactatcttctgttct--------ttcaattacccagttctcatggaat--ctaatgtaaaattcctgg----cagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
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gtggatgatactatactagttattttgctttcaattcttagcgggaatgtgcttgttgctatacaacttgctgcatctccagttctcgattgtttttgttgattcgtttcttcttatatggttgattaattattgctgaataacagGAGGGTATCTATTTGTTTAATCGGAAGCCGAAGAAGGGGATTGAGTTCCTTGTTAATGCAAGCAAGGTGGGGGAGACACCAGAGGAGATAGCTGCGTTCC
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA01G34560.1 (Glycine max), 3'ss of exon 4
gtaaatgcaagg-caaccttttgggtgcaagcagtactatcttctgttctttcaattacccagttctcatggaatctaatgtaaaattcctggcagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
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gtaaacaaatgaacaaggttttgttaataa--agta--------tatctttgctgtagcttttttaccaatgaagctaatgcaag-tgtatggcagGAAGGTATATCACTTTTTAATAGGAAGCCTAAGAAAGGAATTGAGTTTCTGATCAATGCCAAGAAGGTGGGTGATTCGCCAGAGGAAATAGCTGCTTTTC
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA18G45340.1 (Glycine max), 3'ss of exon 3
gtaaatgcaagg-caaccttttgggtgcaagcagtactatcttctgttctttcaattacccagttctcatggaatctaatgtaaaattcctggcagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
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gtaaacaaatgaacaaggttttgttaataa--agta--------tatctttgctgtagcttttttaccaatgaagctaatgcaag-tgtatggcagGAAGGTATATCACTTTTTAATAGGAAGCCTAAGAAAGGAATTGAGTTTCTGATCAATGCCAACAAGGTGGGTGATTCGCCAGAGGAAATAGCTGCTTTTC
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA03G02610.1 (Glycine max), 3'ss of exon 3
gtaaatgcaagg-caaccttttgggtgcaagcagtactatcttctgttctttcaattacccagttctcatggaatctaatgtaaaattcctggcagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
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gtaaacaaatgaacaaggttttgagaataa--agta-tatctt-tgctctagCTTTTTACCAAT-------GAATCTAATGCTAG-TGTATGGCAGGAAGGTATATCACTTTTTAATAGGAAGCCTAAGAAAGGAATTGAGTTTCTCATCAATGCCAACA------------------------------------
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: GLYMA09G40480.1 (Glycine max), 3'ss of exon 3
gtaaatgcaaggcaaccttttggg--tgcaagcagtactatcttctgttctttcaattacccagttctcatggaatctaatgtaaaattcctggcagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
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gtaaccaagtgcagaaattttggaattgcaagtagatct--ctgttatttctgcaactgtttgacatcta-ggaagctaatgctaagtttatggcagGAAGGTATATCACTTTTTAACAGGAAGCCGAAGAAAGGAATTGAATTCCTCATCAATGCCAACAAAGTGGGTAATTCACCAGAGGAAATAGCTGCTTTTC
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ24773 (Selaginella moellendorffii), 3'ss of exon 3
gtaaatgcaaggcaaccttttgggtgcaagcagtact-atcttctgttctttcaattacccagttctcatggaatctaatgtaaaattcctggcagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
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--------------------------------gtactgaagttctatgcttc---ttatcatattctcacg----ctag---aaaact----gcagGAAGGCATTTCCCTTTTCAATCGGAAGCCTAGCAAAGGCATTCAGTTCCTGATTAATGCCAAGAAGATCGGCGATTCGCCGAAGGAGATAGCAGGATTTT
upper sequence: Vv15s0048g00800.t01 (Vitis vinifera), 3'ss of exon 3
lower sequence: EFJ15473 (Selaginella moellendorffii), 3'ss of exon 3
gtaaatgcaaggcaaccttttgggtgcaagcagtact-atcttctgttctttcaattacccagttctcatggaatctaatgtaaaattcctggcagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
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--------------------------------gtactgaagttctatgcttc---ttatcatattctcacg----ctag---aaaact----gcagGAAGGCATTTCCCTTTTCAATCGGAAGCCTAGCAAAGGCATTCAGTTCCTGATTAATGCCAAAAAGATCGGCGATTCGCCGAAGGAGATAGCAGGATTTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgttctttcaattacccagttctcatggaatctaatgtaaaattcctggcagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
atctaat putative branch site (score: 3)
ttcct putative PPT
aatctaatgtaaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatgcaaggcaaccttttgggtgcaagcagtactatcttctgttctttcaattacccagttctcatggaatctaatgtaaaattcctggcagGAAGGTATAGCTCTTTTCAATCGGAAGCCTAAAAAAGGAATTGAGTTCCTTATTAATGCAAATAAGGTGGGAAACACACCAGAGGAGATAGCAGCTTTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT