Sequence
atgc intronic sequence ATGC exonic sequencegtaaggatcatttgacactgagataagcataacacaatttgtgatttaatcttcactaattttgattgttggaattacatgtttatttatgggtcagttggtttgttgattgattggttcttatgcagCCATAAAGGGGCAGTTGCAGTTAGACAGCCTTATATCAGAGTTGTAGGAATAGAAGAAGCTAATGAGGCCAACTCCCGAGGTCCAGCTGCCTTTACATCA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv11s0149g00130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA13G22420.1 (Glycine max), 3'ss of exon 5
gtaaggatcatttgacactgagataagcataacacaatttgtgatttaatcttcactaattttgattgttggaattacatgtttatttatgggtca-gttggtttgttgattgattggttcttatgcagCCATAAAGGGGCAGTTGCAGTTAGACAGCCTTATATCAGAGTTGTAGGAATAGAAGAAGCTAATGAGGCCAACTCCCGAGGTCCAGCTGCCTTTACATCA
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--------------------------gtgagattca-tcaccaatttaatttttgtatatttaatttttttt--tcattctcccatctgtaattgatgtctggcttcaaatatattgtgttatatgcagCCACAAAGGAGCAGTTGCAATTAGACAGCCTTATATTAGGGTTGTAGGAATAGAAGAAACAAATGAGACCAACTCTCGCGGTCCAGCAGCATTTACACAA
upper sequence: Vv11s0149g00130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: GLYMA17G11220.1 (Glycine max), 3'ss of exon 5
gtaaggatcatttgacactgagataagcataacacaatttgtgatttaatcttcactaattttgattgttggaattacatgtttatttatgggtcagttggtttgttgattgattggttcttatgcagCCATAAAGGGGCAGTTGCAGTTAGACAGCCTTATATCAGAGTTGTAGGAATAGAAGAAGCTAATGAGGCCAACTCCCGAGGTCCAGCTGCCTTTACATCA
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---------------------gtgagattcatcaccatttttatttttgtatat-ttaatttt--ttttcattcccccatctgtagtta-atgtc---tggctt-caaatatattttgttatatgcagTAACAAAGGAGCAGTTGCAATTAGACAGCCTTATATTAGGGTTGTAGGAATAGAAGAAACAAATGAGACCAATTCTCGGGGTCCAGCTGCATTTACACAA
upper sequence: Vv11s0149g00130.t01 (Vitis vinifera), 3'ss of exon 5
lower sequence: AT2G07690.1 (Arabidopsis thaliana), 3'ss of exon 5
gtaaggatcatttgacactgagataagcataacacaatttgtgatttaatcttcact---aattttgattgttggaattacatgtttatttatgggtcagttggtttgttgattgattggttcttatgcagCCATAAAGGGGCAGTTGCAGTTAGACAGCCTTATATCAGAGTTGTAGGAATAGAAGAAGCTAATGAGGCCAACTCCCGAGGTCCAGCTGCCTTTACATCA
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-------------------------------gtaagctttgtagttttatgtcaaatgagagtgtagattgttttctgggagagttacaccacaacaatgatggac-atcttttcctactttctgatgtagGCATAAAGGAGCAGTTGCAATTCGCCAGCCTTATATCCGAGTTGTTGGACTGGAAGACACAAATGAGGCCAGTTCCCGTGGCCCTGCCAACTTCACTCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attacatgtttatttatgggtcagttggtttgttgattgattggttcttatgcagCCATAAAGGGGCAGTTGCAGTTAGACAGCCTTATATCAGAGTTGTAGGAATAGAAGAAGCTAATGAGGCCAACTCCCGAGGTCCAGCTGCCTTTACATCA
gattgat putative branch site (score: 4)
ttcttat putative PPT
atgtttatttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaggatcatttgacactgagataagcataacacaatttgtgatttaatcttcactaattttgattgttggaattacatgtttatttatgggtcagttggtttgttgattgattggttcttatgcagCCATAAAGGGGCAGTTGCAGTTAGACAGCCTTATATCAGAGTTGTAGGAATAGAAGAAGCTAATGAGGCCAACTCCCGAGGTCCAGCTGCCTTTACATCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGC