Sequence
atgc intronic sequence ATGC exonic sequence...atgttctaggttagagcctgagaatagttggattttctgaaagctgaactattgatgcaaatggggtcttactgatattcatccctctgcatggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCCTACGAGAAGCTATGGCTATGCTTTGCTAGACACACAGGTTATGGTGGCTATGGAA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv08s0007g05950.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: LOC_Os01g71420.1 (Oryza sativa), 3'ss of exon 4
----------------------------------------atgttctaggttagagcc--tgagaatagttggattttctg----aaagctgaactattgatgcaaatggggtcttactga-tattcatccct--ctgcatggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCCTACGAGAAGCTATGGCTATGCTTTGCTAGACACACAGGTTATGGTGGCTATGGAA
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gtttgtttcatctgaacatttcttgacatgtatacagaatttcttatcccctgaatcccttcagataacttagatacacaggtcaaaattcagaagacacttactttttatttgttagagaacatatatcattggttgtcattttacagGCAATTTTCGTTGGTCACAACCACGGCCTGGATTGGTGCTGCCCACACGAGAAACTCTGGCTATGTTTTGCCCGACACACAGGCTATGGTGGCTACGGTA
upper sequence: Vv08s0007g05950.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GRMZM2G366607_T01 (Zea mays), 3'ss of exon 2
atgttctaggttagagcctgagaatagttggattttctgaaagctgaactattgatgcaaatggggtcttactgatattcatccctctgcatggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCCTACGA------------------GAAGCTATGGCTATGCTTTGCTAGACACACAGGTTATGGTGGCTATGGAA
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-----gtgcgtcactgtccagg--tgcttggcttggatcagaat---attgttggcggtgacactgtcttctctcgatcgatcgatc-----gatgacagGCGGTGTTTGTTGGGCACAACCACGGGCTGGACTGGTGCTGCCCCTACGACGGCGAGGAGCGGGAGCAGGAGCTGTGGCTGTGCTTCGCACGGCACACGG------------------
upper sequence: Vv08s0007g05950.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: GLYMA02G34830.1 (Glycine max), 3'ss of exon 4
atgttctaggttagagcctgagaatagttggattttctgaaagctgaactattgatgcaaatggggtcttactgatattcatcc-----ctctgcatggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCCTACGAGAAGCTATGGCTATGCTTTGCTAGACACACAGGTTATGGTGGCTATGGAA
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-----aaaatttgaattttgaatgtaatggatttgctttgatggacaattgggcatgcaagtgagattttttttcttttaatctattttcttttcacaaccgcagGCAATTTTTGTTGGACACAACCATGGATTGGACTGGTGCTGCCCTTACGAGAAACTATGGTTATGCTATGCTAGGCACACTGGTTATGGTGGCTATGGAG
upper sequence: Vv08s0007g05950.t01 (Vitis vinifera), 3'ss of exon 4
lower sequence: AT3G10150.1 (Arabidopsis thaliana), 3'ss of exon 3
atgttctaggttagagcctgagaatagttggattttctgaaagctgaactattgatgcaaatggggtcttactgatattcatccctctgcatggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCCTACGAG---AAGCTATGGCTATGCTTTGCTAGACACACAGGTTATGGTGGCTATGGAA
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---------gtactaattattaaaca--cgaaattgcttaacacttagatactggtttga-tataactttaatgaactatatttttgtgta----agtagGCAGTGTTTGTAGGACACAACCATGGACTAGACTGGTGCTGTCCGTACAAAGATAAACTCTGGCTTTGCTTTGCGAGACACACAGGTTATGGTGGATATG--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gaactattgatgcaaatggggtcttactgatattcatccctctgcatggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCCTACGAGAAGCTATGGCTATGCTTTGCTAGACACACAGGTTATGGTGGCTATGGAA
tactgat putative branch site (score: 2)
atattcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
atgttctaggttagagcctgagaatagttggattttctgaaagctgaactattgatgcaaatggggtcttactgatattcatccctctgcatggtggcagGCTGTGTTTGTAGGCCACAATCATGGATTGGACTGGTGCTGCCCCTACGAGAAGCTATGGCTATGCTTTGCTAGACACACAGGTTATGGTGGCTATGGAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - agcctga
- - - - - - - - - - - - tagttgg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - gcaaatg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -cttactg