Sequence
atgc intronic sequence ATGC exonic sequencegtaagagattcgcaaaaatcagccactgaaaaattattttgtcttgtttcaaaactttcatctaataaatccaaacattagaactgtacttttcctttgacccacttttttttataaatgaaaaaaggcattcaagtgggatggttttggcttaaattggtgttatcacagGACGTGATGTTTGGTGGAACAGAAACTGTGGCATCGGCAATCGAGTGGGCAATGGCGGAGCTCATGAAAAGCCCAGATGATCTGAAGAAACTGCAGCAAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv03s0038g00550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os10g36848.1 (Oryza sativa), 3'ss of exon 1
gtaagagattcgcaaaaatcagccactgaaaaattattttgtcttgtttcaaaactttcatctaataaatccaaacattagaactgtacttttcctttgacccacttttttttataaatgaaaaaaggcattcaagtgggatggttttggcttaaattggtgttatcacagGACGTGATGTTTGGTGGAACAGAAACTGTGGCATCGGCAATCGAGTGGGCAATGGCGGAGCTCATGAAAAGCCCAGATGATCTGAAGAAACTGCAGCAAG
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----------------------------------------------------------------gtaaattt-----tctagtctctgccactgattagaaatggagggaataataagtaaacaacaagtagtgtgagtaataagcaaaggtgatgacg-tggcat-gcagGACGTGATGTTCGGGGGGACGGAGACGGTGGCGTCGGCGATCGAGTGGGCGATGGCGGAGATGATGCACAGCCCCGACGACCTCCGCCGCGTGCAGGAGG
upper sequence: Vv03s0038g00550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AC210173.4_FGT005 (Zea mays), 3'ss of exon 1
gtaagagattcgcaaaaatcagccactgaaaaattattttgtcttgtttcaaaactttcatctaataaatccaaacattagaactgtacttttcctttgacccacttttttttataaatgaaaaaaggcattcaagtgggatggttttggcttaaattggtgttatcacagGACGTGATGTTTGGTGGAACAGAAACTGTGGCATCGGCAATCGAGTGGGCAATGGCGGAGCTCATGAAAAGCCCAGATGATCTGAAGAAACTGCAGCAAG
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------------------------------------------------gccagattctca----gaaaagctggtcaaaaaagcta------------aaccaaacagcccctataaatgat-----gcgtctctatcttttggtcgttgatgga--cgacgcgtgcgcagGACGTGATGTTTGGCGGGACGGAGACGGTGGCGTCGGCGATCGAGTGGGCGATGGCGGAGATGATGCACAGCCCCGACGACCTGCGCCGGCTGCAGCAGG
upper sequence: Vv03s0038g00550.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G100158_T01 (Zea mays), 3'ss of exon 1
gtaagagattcgcaaaaatcagccactgaaaaattattttgtcttgtttcaaaactttcatctaataaatccaaacattagaactgtacttttcctttgacccacttttttttataaatgaaaaaaggcattcaagtgggatggttttggcttaaattggtgttatcacagGACGTGATGTTTGGTGGAACAGAAACTGTGGCATCGGCAATCGAGTGGGCAATGGCGGAGCTCATGAAAAGCCCAGATGATCTGAAGAAACTGCAGCAAG
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---------------------------------------------------------------gggtaatatgtacctcaccatcgcgtcgtta-tgtattttgttgttttttatgagcagtcaaagct------gtaaactaataatgatgtatggacgccgcat-gcagGACGTGATGTTCGGCGGGACGGAGACGGTGGCGTCGGCGATCGAGTGGGCCATGGCGGAGATGATGCACAGCCCCGACGACCTGCGCCGGGTGCAGCAGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgaaaaaaggcattcaagtgggatggttttggcttaaattggtgttatcacagGACGTGATGTTTGGTGGAACAGAAACTGTGGCATCGGCAATCGAGTGGGCAATGGCGGAGCTCATGAAAAGCCCAGATGATCTGAAGAAACTGCAGCAAG
ttaaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagagattcgcaaaaatcagccactgaaaaattattttgtcttgtttcaaaactttcatctaataaatccaaacattagaactgtacttttcctttgacccacttttttttataaatgaaaaaaggcattcaagtgggatggttttggcttaaattggtgttatcacagGACGTGATGTTTGGTGGAACAGAAACTGTGGCATCGGCAATCGAGTGGGCAATGGCGGAGCTCATGAAAAGCCCAGATGATCTGAAGAAACTGCAGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG