Sequence
atgc intronic sequence ATGC exonic sequencegtaggttaaaagtttctttaagaattttagcagttttactatcttgcacgtaatgatctcacgagagttcaagttttgatttatattggatcagaaactatttttctgccccattttgttcatacttatttgtttgttgggttttagGTCCAGCCTTTTGTTGGCATTTGGAGTGATAAATGTACTTCAAAGTATGGAAGAAGACGACCATTTATTCTAGTTGGATCATTCATGATCTCAATAGCA
Basic information
species | Arabidopsis thaliana |
transcript | AT2G02860.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA18G15950.1 (Glycine max), 3'ss of exon 2
gtaggttaaaagtttctttaagaattttagcagttttactatcttgcacgtaatgatctcacgagagttcaagttttgatttatattggatcagaaactatttttctgccccattttgttcatacttatttgtttgttgggttttagGTCCAGCCTTTTGTTGGCATTTGGAGTGATAAATGTACTTCAAAGTATGGAAGAAGACGACCATTTATTCTAGTTGGATCATTCATGATCTCAATAGCA
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------------------------------ggaatagagaattataaacagtgtgata-cgtacaagtttatgctttgctct-tgttggtttggaa---------ctagaaaatcacgt--atgtgtctcaacttttca----ttagGTTCAACCATGCGTTGGTATTTGGAGTGATAAATGCACTTCAAGGTTTGGCAGAAGACGACCATTCATTCTGGCAGGATCTCTTATGATATGTCTGGCT
upper sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G40980.1 (Glycine max), 3'ss of exon 2
gtaggttaaaagtttctttaagaattttagcagttttactatcttgcacgtaatgatctcacgagagttcaagttttgatttatattggatcagaaactatttttctgccccattttgttcatacttatttgtttgttgggttttagGTCCAGCCTTTTGTTGGCATTTGGAGTGATAAATGTACTTCAAAGTATGGAAGAAGACGACCATTTATTCTAGTTGGATCATTCATGATCTCAATAGCA
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------------------------------ggaatatagagttatagatggtgtgata-catgcaggtttatgctttgttct-tgttggtttggaa---------ctagaaaatcacgt--atgtgtctcaatttttca----taagGTTCAACCATGCGTTGGTATTTGGAGTGATAAATGTACTTCAAGGTTTGGCAGAAGACGGCCGTTCATTCTGGCAGGATCTCTTATGATATGTCTGGCT
upper sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv01s0026g01960.t01 (Vitis vinifera), 3'ss of exon 2
gtaggttaaaagtttctttaagaattttagcagttttactatcttgcacgtaatgatctcacgagagttcaagttttgatttatattggatcagaaactatttttctgccccattttgttcatacttatttgtttgttgggttttagGTCCAGCCTTTTGTTGGCATTTGGAGTGATAAATGTACTTCAAAGTATGGAAGAAGACGACCATTTATTCTAGTTGGATCATTCATGATCTCAATAGCA
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-------------------------------------ttgattttaaatctgaag----tgcaagtaacaaaaatttg-ttattactatat-atacacttcatttgaatttaaattttcctgaa---aattgctcgg-acttttcagGTTCAGCCTTGTGTTGGGATATGGAGTGACAAGTGCTCTTCAAAATATGGAAGAAGACGACCATTTATTCTTGCTGGGTCTCTAATGATCTCAGTTGCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agaaactatttttctgccccattttgttcatacttatttgtttgttgggttttagGTCCAGCCTTTTGTTGGCATTTGGAGTGATAAATGTACTTCAAAGTATGGAAGAAGACGACCATTTATTCTAGTTGGATCATTCATGATCTCAATAGCA
atacttatttgttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaggttaaaagtttctttaagaattttagcagttttactatcttgcacgtaatgatctcacgagagttcaagttttgatttatattggatcagaaactatttttctgccccattttgttcatacttatttgtttgttgggttttagGTCCAGCCTTTTGTTGGCATTTGGAGTGATAAATGTACTTCAAAGTATGGAAGAAGACGACCATTTATTCTAGTTGGATCATTCATGATCTCAATAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG