Sequence
atgc intronic sequence ATGC exonic sequencegtaagtatataattaagaatccaataagttgtgattaggaattaattaagtactgttttgtgatttgccattgactaaaggtcaaagacttcaatactattactattgaagttttggtttttgttttgttctaagtgtaagtattaatgtaaatatttgattgatgtagACATAGATGGACGGGAAGATATGAAGCACATCTATGGGATAATAGCTGTAGGAGAGAAGGTCAGGCCAGGAAGGGACGTCAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G10510.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G10510.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA08G38190.1 (Glycine max), 3'ss of exon 2
gtaagtatataattaagaatccaataagttgtgattaggaattaattaagtactgttttgtgatttgccattgactaaaggtcaaagacttcaatactattactattgaagttttggtttttgttttgttctaagtgtaagtattaatgtaaatatttgattgatgtagACATAGATGGACGGGAAGATATGAAGCACATCTATGGGATAATAGCTGTAGGAGAGAAGGTCAGGCCAGGAAGGGACGTCAAG
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---------------------------------------------------gtcgtcatgaattttggc-cagtttgaa--ttgaaaactctttttttcttaatatttgttatttatttatttttttgttt--attttgggt-------------tttgttcaccgcagGCACCGATGGACGGGAAGATATGAAGCGCATCTATGGGATAACAGCTGTAGGCGAGAGG------------------------
upper sequence: AT5G10510.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 3
gtaagtatataattaagaatccaataagttgtgattaggaattaattaagtactgttttgtgatttgccattgactaaaggtcaaagacttcaatactattactattgaagttttggtttttgttttgttctaagtgtaagtattaatgtaaatatttgattgatgtagACATAGATGGACGGGAAGATATGAAGCACATCTATGGGATAATAGCTGTAGGAGAGAAGGTCAGGCCAGGAAGGGACGTCAAG
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-----------------------------------------------------------gagagaggg----gggtcaaggtcagaaatttggcctcttctcacacatctatttcatgttagatttt--tttattttttttttgtgatgggattcttctctt----cagGCACCGATGGACAGGAAGATATGAAGCGCATCTATGGGACAATAGTTGCAGAAGGGAGGGTCAAGCCAGAAAAGGGCGTCAAG
upper sequence: AT5G10510.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA09G33240.1 (Glycine max), 3'ss of exon 3
gtaagtatataattaagaatccaataagttgtgattaggaattaattaagtactgttttgtgatttgccattgactaaaggtcaaagacttcaatactattactattgaagttttggtttttgttttgttctaagtgtaagtattaat-gtaaatatttgattgatgtagACATAGATGGACGGGAAGATATGAAGCACATCTATGGGATAATAGCTGTAGGAGAGAAGGTCAGGCCAGGAAGGGACGTCAAG
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------------------------------------------------------------------gtcaaggtcagaaatttggcctcttc--tcacacatctatttca-tgttagattttgtgtctttttaatt-tatttattttttggtgatgggggttctctgcagGCACCGATGGACAGGAAGATATGAAGCGCATCTATGGGACAATAGTTGCAGAAGGGAGGGTCAAGCTAGAAAAGGGCGTCAAG
upper sequence: AT5G10510.3 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 2
gtaagtatataattaagaatccaataagttgtgattaggaattaattaagtactgttttgtgatttgccattgactaaaggtcaaagacttcaatactattactattgaagttttggtttttgttttgttctaagtgtaagtattaatgtaaatatttg-attgat--gtagACATAGATGGACGGGAAGATATGAAGCACATCTATGGGATAATAGCTGTAGGAGAGAAGGTCAGGCCAGGAAGGGACGTCAAG
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-----------------------------------------------------------------------taac-agcattcactgtttcaagtgtttgggttcctgggaacttgttcatcagtgtgtatagggaacaaactagtttattgctttctgtattgctttgcagACACAGGTGGACGGGTAGATATGAAGCGCATCTGTGGGATAACAGCAGCAGAAGGGAGGGCCAGGCCAGGAAGGGGCGTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggtttttgttttgttctaagtgtaagtattaatgtaaatatttgattgatgtagACATAGATGGACGGGAAGATATGAAGCACATCTATGGGATAATAGCTGTAGGAGAGAAGGTCAGGCCAGGAAGGGACGTCAAG
taagtattaatgtaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtatataattaagaatccaataagttgtgattaggaattaattaagtactgttttgtgatttgccattgactaaaggtcaaagacttcaatactattactattgaagttttggtttttgttttgttctaagtgtaagtattaatgtaaatatttgattgatgtagACATAGATGGACGGGAAGATATGAAGCACATCTATGGGATAATAGCTGTAGGAGAGAAGGTCAGGCCAGGAAGGGACGTCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA