Sequence
atgc intronic sequence ATGC exonic sequencegtggtttcagagacaacggaaccctctgtgtgatccttttctgcttaatttggtgaaaatgttgtggcatttatgttagctccatttgtttttgtgtatgtgtgggaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCATACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G125947_T01 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g07080.1 (Oryza sativa), 3'ss of exon 2
gtggtttcagagacaacggaaccctc-tgtgtgatccttttctgcttaatttggtgaaaatgttgtggcatttatgttagctccatttgtttttgtgtatgtgtgg--gaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCATACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
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gtggttttggaagcaattgaaaattcatgtgttgttcttttgtgcttga---aatgcaaat---------------ctgacataaattgttgttgtgtatgtgttttcgaagcagATTTTGATCCTGGATGAAGCTGATAGGCTGTTGGATTTAGGATTCCAGAAGCAGATTACGTCGATTATTTCGAAGTTGCCAAAGCTGAGGAGAACAGGGC
upper sequence: GRMZM2G125947_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G02760.1 (Glycine max), 3'ss of exon 2
gtggtttcagagacaacggaaccctctgtgtgatccttttctgcttaatttggtgaaaatgttgtggcatttatgttagctccatttgtttttgtgtatgtgtgggaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCATACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
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gaagttgttggaa-----aaatattccgaat-agagtatttgatttgactttttttttatttttt----tttattttagc-cagttgacattattatgactgttctta-cagATTTTGATTTTGGATGAGGCTGATAGACTCTTAGATATGGGATTCCAGAAGCAGATAACTTCTATTATAACTCTCTTGCCTAAGCTTCGGAGAACTGGTC
upper sequence: GRMZM2G125947_T01 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA11G35640.1 (Glycine max), 3'ss of exon 2
gtggtttcagagacaacggaaccctctgtgtgatccttttctgcttaatttggtgaaaatgttgtggcatttatgttagctccatttgtttttgtgtatgtgtgggaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCATACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
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--attatttgatttggtgta-----ttacacccccccctcccccccccccccccacacacacacacactattttagcaatttgacattattatgattattctta-----cagATTTTGATTTTGGATGAGGCTGATAGACTCTTAGATATGGGATTCCAGAAGCAGATAACTTCTATTATATCTCTCTTGCCTAAGCTTCGGAGAACTGGTC
upper sequence: GRMZM2G125947_T01 (Zea mays), 3'ss of exon 2
lower sequence: Vv13s0067g01900.t01 (Vitis vinifera), 3'ss of exon 2
gtggtttcagagacaacggaaccctctgtgtgatccttttctgcttaatttggtgaaaatgttgtggcatttatgttagctccatttgtttttgtgtatgtgtgggaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCATACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
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---------gaaatttcctcttgctgagtatgatatccttttggat--ttttaccaagtttgtttcaaaataattaaatttatactcctgaatttttgttggttggaa-cagATTTTGATTTTGGACGAGGCTGATAGGCTTTTAGATATGGGATTCCAGAAGCAAATTACTTCCATCATTGCTCGCCTACCAAAGCTTCGCAGAACTGGTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatgttgtggcatttatgttagctccatttgtttttgtgtatgtgtgggaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCATACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
atttatgtta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtggtttcagagacaacggaaccctctgtgtgatccttttctgcttaatttggtgaaaatgttgtggcatttatgttagctccatttgtttttgtgtatgtgtgggaagcagATTTTGATCCTAGATGAGGCTGATAGGCTCTTGGATATGGGATTCCAGAAACATATTAACTTCATACTTTCAATGTTGCCAAAGCTGAGGAGGACTGGGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGGA