Sequence
atgc intronic sequence ATGC exonic sequence...aaaaagtctcctaattctggggccactgtcttttagaaatgaagcagtcaatagttttttattttattttattttacttttttatgtgcctgtattacagAGGGAGGAGAAATTTTTAGCTGGGGATGGAACAAGTATGGCCAG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g00930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G337819_T01 (Zea mays), 3'ss of exon 9
aaaaagtctcctaattctggggccactgtcttttagaaatga-agcagtcaatagttttt-tattttattttattttacttttttatgtgcctgtattacagAGGGAGGAGAAATTTTTAGCTGGGGATGGAACAAGTATGGCCAG
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-aggtggtggaaaaaaatgtgtccatagaaatggaaaggggttaactatctatattaccaataagtttttccatctgacaagggt-tacacaactattgcagATGAAGGTGAGGTATTCTGCTGGGGATGGAACAAGTATGGCCAG
upper sequence: Vv08s0007g00930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: GRMZM2G337819_T02 (Zea mays), 3'ss of exon 9
aaaaagtctcctaattctggggccactgtcttttagaaatga-agcagtcaatagt-tttttattttattttattttacttttttatgtgcctgtattacagAGGGAGGAGAAATTTTTAGCTGGGGATGGAACAAGTATGGCCAG--------------------------------------------------------
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-aggtggtggaaaaaaatgtgtccatagaaatggaaaggggttaactatctatattaccaataagtttttccatctgacaagggt-tacacaactattgcagATGAAGGTGAGGTATTCTGCTGGGGATGGAACAAGTATGGCCAGGTGGGTGCCCCTTAACATACCTTTTGCATAAACATATTGGATTGTAAAATTAGCTG
upper sequence: Vv08s0007g00930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ20945 (Selaginella moellendorffii), 3'ss of exon 9
aaaaagtctcctaattctggggccactgtcttttagaaatgaagcagtcaatagttttttattttattttattttacttttttatgtgcctgtattacagAGGGAGGAGAAATTTTTAGCTGGGGATGGAACAAGTATGGCCAG
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-----------------------------------gtactgagctccacaaaaatccgcatttccaaccagaagttggtttttttgttcttttga-gcagAAAAGGGGAAGGTTTTTTGCTGGGGATGGAACAAGTATGGCCAG
upper sequence: Vv08s0007g00930.t01 (Vitis vinifera), 3'ss of exon 9
lower sequence: EFJ32311 (Selaginella moellendorffii), 3'ss of exon 9
aaaaagtctcctaattctggggccactgtcttttagaaatgaagcagtcaatagttttttattttattttattttacttttttatgtgcctgtattacagAGGGAGGAGAAATTTTTAGCTGGGGATGGAACAAGTATGGCCAG
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-----------------------------------gtactgagcttcacaaaaatccgcatttccaaccagaagtcggtttttttgttcttttga-gcagAAAAGGGGAAGGTTTTTTGCTGGGGATGGAACAAGTATGGCCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtcaatagttttttattttattttattttacttttttatgtgcctgtattacagAGGGAGGAGAAATTTTTAGCTGGGGATGGAACAAGTATGGCCAG
atagttttttatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaagtctcctaattctggggccactgtcttttagaaatgaagcagtcaatagttttttattttattttattttacttttttatgtgcctgtattacagAGGGAGGAGAAATTTTTAGCTGGGGATGGAACAAGTATGGCCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
aaaaagt
- - - -ctcctaa
- - - - - - - - - - -gccactg
- - - - - - - - - - - - - - - - - - aaatgaa
- - - - - - - - - - - - - - - - - - - - - -gcagtca