Sequence
atgc intronic sequence ATGC exonic sequencegtgaagttattttctctctttcttttcttttctatttttttttggttttttgattttatttttgggattgagtttattgagttccgttgtggtggtttcagATTGATTTGCTGGAGAATCCGGCGATTGATGACGTCGTGGTGCTGTCTGTGGTGCTGGAAGAAGTTAAGAACAAGAATATTTCTGTTTACAACAGACTTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G031859_T01 (Zea mays), 3'ss of exon 2
gtgaagttattttctctctttcttttcttttctatttttttttggttttttgattttatttttgggattgagtttattgagttccgttgtggtggtttcagATTGATTTGCTGGAGAATCCGGCGATTGATGACGTCGTGGTGCTGTCTGTGGTGCTGGAAGAAGTTAAGAACAAGAATATTTCTGTTTACAACAGACTTA
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gtaacggaagtgttcctccatctc-------ccgcttagcctaggtgtgagggtgcg----ctgggatga-------tgagttgagatgctgcg---tcagATCGATTTGCTGGAGAACCCGGCGATTGAGGATGTCGTCCTGCTGTCAGTGGTGCTGGACGAGGTGAAGAATAAGAACCTTTCAGTTTTCAACAGGATCA
upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA12G34640.1 (Glycine max), 3'ss of exon 2
gtgaagttattttctctctttcttttcttttctatttttttttggttttttgattttatttttgggattga-gtttattgagttccgttgtggtggtttcagATTGATTTGCTGGAGAATCCGGCGATTGATGACGTCGTGGTGCTGTCTGTGGTGCTGGAAGAAGTTAAGAACAAGAATATTTCTGTTTACAACAGACTTA
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-----------------gtccgcttcctcctctatttttctcgccttaattcaacttaggcttgttttttttgtgaattggaatgtgt-gttgttgctgcagATTGATTTGCTGGAGAATCCGGCGATTGACGATGTTGTGGTGTTGTCCATTGTGTTGGAAGAGGTTAAGAACAAGAACATGTCTGTTTACAACCGTATAA
upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA04G39980.1 (Glycine max), 3'ss of exon 2
gtgaagttattttctctctttcttttcttttctatttttttttggttttttgattttatttttgggattgagtttattgagttccgttgtggtggtttcagATTGATTTGCTGGAGAATCCGGCGATTGATGACGTCGTGGTGCTGTCTGTGGTGCTGGAAGAAGTTAAGAACAAGAATATTTCTGTTTACAACAGACTTA
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------------gtccgcttcctcctctatttttctcgccttaattcaactgaggcttctttt----ttttgtgaattggaatgtgt-gttgttgctgcagATTGATTTGCTGGAGAATCCGGCAATTGACGATGTTGTGGTGTTGTCCATTGTGTTGGAAGAGGTTAAGAACAAGAACATGTCTGTTTACAACCGTATAA
upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA06G14870.2 (Glycine max), 3'ss of exon 2
gtgaagttattttctctctttcttttcttttctatttttttttggttttttgattttatttttgggattgagtttattgagttccgttgtggtggtttcagATTGATTTGCTGGAGAATCCGGCGATTGATGACGTCGTGGTGCTGTCTGTGGTGCTGGAAGAAGTTAAGAACAAGAATATTTCTGTTTACAACAGACTTA
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----gtccgcttcctccatcatttttctcgccttaattcaactgagactttttttttttttttt---ttttgtgaattggaatgtgttgttgctg---cagATTGATTTGCTGGAGAATCCGGCGATCGACGATGTTGTGGTGTTGTCCATTGTGTTGGAAGAGGTTAAGAACAAGAACATGTCTGTTTACAACCGTATAA
upper sequence: Vv07s0031g02190.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT2G17510.2 (Arabidopsis thaliana), 3'ss of exon 3
gtgaagttattttctctctttcttttcttttctatttttttttggttttttgattttatttttgggattgagtttattgagttccgttgtggtggtttcagATTGATTTGCTGGAGAATCCGGCGATTGATGACGTCGTGGTGCTGTCTGTGGTGCTGGAAGAAGTTAAGAACAAGAATATTTCTGTTTACAACAGACTTA
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--gtaatttttctttaatttgattacataagctaaaagttttgagcttgtgggtattactaatgtaat--attttgtttgtttctggt-----------agATTGATTTGTTGGAAAATAAGGCTATAGACACTGTTGTTGTTCTGTCTGTGGTGTTGGACGAAGTTAAGAACAGGAATAGATCGGTTTACAATAGAATCA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttttgattttatttttgggattgagtttattgagttccgttgtggtggtttcagATTGATTTGCTGGAGAATCCGGCGATTGATGACGTCGTGGTGCTGTCTGTGGTGCTGGAAGAAGTTAAGAACAAGAATATTTCTGTTTACAACAGACTTA
ttttgat putative branch site (score: 4)
attttattttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgaagttattttctctctttcttttcttttctatttttttttggttttttgattttatttttgggattgagtttattgagttccgttgtggtggtttcagATTGATTTGCTGGAGAATCCGGCGATTGATGACGTCGTGGTGCTGTCTGTGGTGCTGGAAGAAGTTAAGAACAAGAATATTTCTGTTTACAACAGACTTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC