Sequence
atgc intronic sequence ATGC exonic sequence...gaaatttcctcttgctgagtatgatatccttttggatttttaccaagtttgtttcaaaataattaaatttatactcctgaatttttgttggttggaacagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: LOC_Os01g07080.1 (Oryza sativa), 3'ss of exon 2
gaaatttcctcttgctgagtatgatatccttttggatttttaccaagtttgtttcaaaataattaaatttat-actcctgaatttttgttggttggaacagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC
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---gtggttttggaagcaattgaaaattcatgtgttgttcttttgtgcttgaaatgcaaatctgacataaattgttgttgtgtatgtgttt-tcgaagcagATTTTGATCCTGGATGAAGCTGATAGGCTGTTGGATTTAGGATTCCAGAAGCAGATTACGTCGATTATTTCGAAGTTGCCAAAGCTGAGGAGAACAGGGC
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G125947_T01 (Zea mays), 3'ss of exon 2
---------gaaatttcctcttgctgagtatgatatccttttggat--ttttaccaagtttgtttcaaaataattaaatttatactcctgaatttttgttggttggaa-cagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC
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gtggtttcagagacaacggaaccctctgtgtgatccttttctgcttaatttggtgaaaatgttgtggcatttatgttagctccatttgtttttgtgtatgtgtgggaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCATACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G367714_T01 (Zea mays), 3'ss of exon 4
---------gaaatttcctcttgctgagtatgatatccttttg--gatttttaccaagtttgtttcaaaataattaaatttatactcctgaatttttgttggttggaa-cagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC
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gtggtttcagagacaacggaaccctctgtgtgatccttttctgctgaatttagtgaaaatgttgtggcatttatgttagctccatttgtttttgtgtatgtgtgggaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCGTACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GRMZM2G303752_T01 (Zea mays), 3'ss of exon 2
---------gaaatttcctcttgctgagtatgatatccttttg--gatttttaccaagtttgtttcaaaataattaaatttatactcctgaatttttgttggttggaa-cagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC
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gtggtttcagagacaacggaaccctttatgtgatccttttatgctgaatttggtgaaaatgttgtggcatttatgttagctccatttgtttttgtgtatgcatgggaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCATACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA11G35640.1 (Glycine max), 3'ss of exon 2
gaaatttcctcttgctgagtatgatatccttttggatttttaccaagtttgtttcaaaata-attaaatttatactcctgaatttttgt--tggttggaacagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC
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---attatttgatttggtgtattacacccccccctcccccccccccccccacacacacacacactattttagcaatttgacattattatgattattcttacagATTTTGATTTTGGATGAGGCTGATAGACTCTTAGATATGGGATTCCAGAAGCAGATAACTTCTATTATATCTCTCTTGCCTAAGCTTCGGAGAACTGGTC
upper sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 2
gaaatttcct------cttgctgagtatgatatccttttggatttttaccaagtttgtttcaaaataattaaatttatactcctgaatttttgttggttggaacagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC
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gaagttgttggaaaaatattccgaatagagtatttgatttgactttttttttatttttttttattttagccagttgacattatta------tgactgttcttacagATTTTGATTTTGGATGAGGCTGATAGACTCTTAGATATGGGATTCCAGAAGCAGATAACTTCTATTATAACTCTCTTGCCTAAGCTTCGGAGAACTGGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtttgtttcaaaataattaaatttatactcctgaatttttgttggttggaacagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC
tttcaaaataattaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gaaatttcctcttgctgagtatgatatccttttggatttttaccaagtttgtttcaaaataattaaatttatactcctgaatttttgttggttggaacagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC
- - - - ctcttgc
- - - - - - - - - - - - - -ccttttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - -aaaataa
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctcctga