Sequence
atgc intronic sequence ATGC exonic sequence...ggtttctaaaaacttttgagtctcgatttggtttcagaggaagaaattatttttcgggttaaatcaagctgttaaatgaggatgatatatgcttgtgcagATGTCGAGAGAAGCAGAGAAAAGAGGCTTCTCGACTCCAGACCGTGAACAGGAAATTGACGGCCATGAACAAGCTGTTGATGGAGGAGAATGATCGGCTG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: LOC_Os03g01890.1 (Oryza sativa), 3'ss of exon 2
-----ggtttctaaaaacttttgagtctcgatttggtttcagaggaagaaattatttttcgggttaaatcaagctgttaaatgaggatgatatatgcttgtgcagATGTCGAGAGAAGCAGAGAAAAGAGGCTTCTCGACTCCAGACCGTGAACAGGAAATTGACGGCCATGAACAAGCTGTTGATGGAGGAGAATGATCGGCTG
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aaaatgtagtataattactttagctgacggctctgcatgtatatgattttttcgtttttcatgttcgctgaagtggatacttgtgcttg-----tgttgctctagGTGCCGGGATAAGCAGCGGAAGGAGTCTTCACGGCTTCAGGCTGTCAACAGGAAATTGACGGCAATGAACAAGCTACTTATGGAAGAGAATGAGCGACTC
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GRMZM2G469551_T02 (Zea mays), 3'ss of exon 2
-----ggtttctaaaaacttttgagtctcgatttggtttcagaggaagaaattatttttcgggttaaatcaagctgttaaatgaggatgatatatgcttgtgc-agATGTCGAGAGAAGCAGAGAAAAGAGGCTTCTCGACTCCAGACCGTGAACAGGAAATTGACGGCCATGAACAAGCTGTTGATGGAGGAGAATGATCGGCTG
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agttcgtcttcttgattttcgccagccc----tttactatagccatgctgattctgatttg--tccgctctagctgaattctgtgcccattctttcatggtgttagGTGCCGTGACAAGCAACGCAATGAGTCTTCGAGGCTCCAGTCCGTGAACAGAAAGTTGACTGCAATGAACAAGCTTCTCATGGAGGAGAATGAGCGATTG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA11G20520.1 (Glycine max), 3'ss of exon 1
ggtttctaaaaacttttgagtctcgatttggtttcagaggaagaaattatttttcgggttaaatcaagctgttaaatgaggatgatatatgct-tgtgcagATGTCGAGAGAAGCAGAGAAAAGAGGCTTCTCGACTCCAGACCGTGAACAGGAAATTGACGGCCATGAACAAGCTGTTGATGGAGGAGAATGATCGGCTG
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--------gtgagtaacacaaatcaaccctattttaa--gtccctctcttcattctttttgaaattggttcttagatgtgaaggttttggatggtgtgcagGTGTAGGGAGAAGCAAAGAAAAGAGGCATCTAGGCTTCAGACCGTGAACCGCAAACTCACTGCAATGAACAAGTTGTTGATGGAGGAGAATGATCGGTTG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: GLYMA12G08080.1 (Glycine max), 3'ss of exon 1
ggtttctaaaaacttttgagtctcgatttggtttcagaggaagaaattatttttcgggt-taaatcaagctgttaaatg-aggatgatatatgcttgtgcagATGTCGAGAGAAGCAGAGAAAAGAGGCTTCTCGACTCCAGACCGTGAACAGGAAATTGACGGCCATGAACAAGCTGTTGATGGAGGAGAATGATCGGCTG
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------gtgagtcactcaaatcaacact--actttaaggcccctcgttctttcatgtttctgaaagtggttcttagatgtggggttttgggtggt-gtgtagGTGTAGGGAGAAGCAGAGAAAAGAGGCATCTAGGCTTCAGACTGTGAACCGCAAACTCACTGCAATGAACAAGTTGTTGATGGAGGAGAATGATCGGTTG
upper sequence: Vv06s0004g02800.t01 (Vitis vinifera), 3'ss of exon 1
lower sequence: AT5G60690.1 (Arabidopsis thaliana), 3'ss of exon 1
-----ggtttctaaaaacttttgagtctcgatttggtttcagaggaagaaattatttttcgggttaaatcaagctgttaaatgaggatgatatatgcttgtgcagATGTCGAGAGAAGCAGAGAAAAGAGGCTTCTCGACTCCAGACCGTGAACAGGAAATTGACGGCCATGAACAAGCTGTTGATGGAGGAGAATGATCGGCTG
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caatagcttggtgtaactgttcttgtgacgatatggttactgtctgat---ctggtgtctaatcttaggagttttgttgattcgttttgttgtgtggttt--cagGTGTCGAGATAAGCAGAGGAAAGAGGCGTCGAGGCTCCAGAGCGTAAACCGGAAGCTCTCTGCGATGAATAAACTGTTGATGGAGGAGAATGATAGGTTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attatttttcgggttaaatcaagctgttaaatgaggatgatatatgcttgtgcagATGTCGAGAGAAGCAGAGAAAAGAGGCTTCTCGACTCCAGACCGTGAACAGGAAATTGACGGCCATGAACAAGCTGTTGATGGAGGAGAATGATCGGCTG
ttaaatcaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ggtttctaaaaacttttgagtctcgatttggtttcagaggaagaaattatttttcgggttaaatcaagctgttaaatgaggatgatatatgcttgtgcagATGTCGAGAGAAGCAGAGAAAAGAGGCTTCTCGACTCCAGACCGTGAACAGGAAATTGACGGCCATGAACAAGCTGTTGATGGAGGAGAATGATCGGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA
- - - taaaaac
- - - - - - - - - - - - - - - - - - - ggaagaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaatcaa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaatgag