Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgccaatagaagatatgatttctgttttgattttcttttaggagatagctggctacattgtgttttatataagctaaacaaaagcttgcaatttaggtgataataatcggattttctgcagACATTGGGTATCTGTTAGGAGATTCAAAGGAACATTGCAG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G02860.2 |
intron # | 3 |
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 3
lower sequence: GLYMA18G15950.1 (Glycine max), 3'ss of exon 3
gtaagtgccaatagaagatatgatttctgttttgattttcttttaggagatagctggctacattgtgttttatataagctaaacaaaagcttgcaatttaggtgataataatcggattttctgcagACATTGGGTATCTGTTAGGAGATTCAAAGGAACATTGCAG
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gtaagcatcggtgacattgattgttt--actctgattttattttt------------ttatgctacattacacatatgctaagtcaagtcttgtaatttagGTGATATTAATCGGATTTTCTGCAGACATTGGATATGTATTAGGTGATACACACGAGCATTGCAG
upper sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G40980.1 (Glycine max), 3'ss of exon 3
gtaagtgccaatagaagatatgatttctgttttgattttcttttaggagatagctggctacattgtgttttatataagctaaacaaaagcttgcaatttaggtgataataatcggattttctgcagACATTGGGTATCTGTTAGGAGATTCAAAGGAACATTGCAG
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gtaagtatctgtgacattgattgttt--actttgattttgttttt------------ttatgctacattacatatgtgctaagtcaagtcttgtaatttagGTGATATTAATCGGATTTTCTGCTGACATTGGATATGTATTAGGTGATACACATGAGCATTGCAG
upper sequence: AT2G02860.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv01s0026g01960.t01 (Vitis vinifera), 3'ss of exon 3
gtaagtgccaatagaagatatgatttctgttttgattttcttttaggagatagctggctacattgtgttttatataagctaaa-caaaagcttgcaatttaggtgataataatcggattttctgcagACATTGGGTATCTGTTAGGAGATTCAAAGGAACATTGCAG
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------gtaagcataaaaaa--gtttcttatatgaatttttttaagtgatta------tatatttttatttatattgactaaaacaaagttttggaatttagGTGACAATTATTGGGTTTTCTGCAGACATTGGATATTTATTAGGAGATACCAATATGGATTGCAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atataagctaaacaaaagcttgcaatttaggtgataataatcggattttctgcagACATTGGGTATCTGTTAGGAGATTCAAAGGAACATTGCAG
agctaaa putative branch site (score: 3)
ttttctgc putative PPT
tgataataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgccaatagaagatatgatttctgttttgattttcttttaggagatagctggctacattgtgttttatataagctaaacaaaagcttgcaatttaggtgataataatcggattttctgcagACATTGGGTATCTGTTAGGAGATTCAAAGGAACATTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA