Sequence
atgc intronic sequence ATGC exonic sequence...aatcaacagtatacttgggtaagaacaaatatcttaatcagtcagcatgtgaataatgttgaatatgtatctgtggtgtctaactttgttaatgattcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
Basic information
species | Arabidopsis thaliana |
transcript | AT5G10510.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G10510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA09G33240.1 (Glycine max), 3'ss of exon 4
aatcaacagtatacttgggtaagaacaaatatcttaatc-agtcagcatgtgaataatgttgaatatgtatctgtggtgtc-taactttgttaatgattcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
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-atttatatt-tacttcaagaatgctcctcaacctatcctaaagcttttttctgtattttgagagatggttttgtaacatagtgaattgtcttgtttatcagGTGGATATGATAAGGAAGAAAAGGCCGCTAGATCTTATGATTTGGCAGCTCTGAAGTACTGGGGTCCCACTGCTACCACCAACTTCCCT
upper sequence: AT5G10510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA01G02760.1 (Glycine max), 3'ss of exon 4
aatcaacagtatacttgggtaagaacaaatatcttaatcagtcagcatgtgaataatgttgaatatgtatctgtggtgtctaactttgttaatgat-tcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
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catttagatt-tacttcaagaaatctgctcaacttatcttaaaaaaatttatgttgtttgagagatggttttgtgacatagtaaattgtcgtggttatcagGTGGATATGATAAGGAAGAAAAGGCCGCGAGAGCTTATGATTTGGCAGCTCTAAAGTACTGGGGTCCCACTGCTACCACCAACTTCCCT
upper sequence: AT5G10510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA08G38190.1 (Glycine max), 3'ss of exon 3
---aatcaacagtatacttgggtaagaacaaatatcttaatcagtcagcatgtgaataatgttgaatatgtatctgtggtgtctaactttgttaatgattcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
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aaatgttgctacttaattttatttttggtcgtttcccaacttatttttaaacttgatactgtttgaaattaaattgtggtgatta--ttaatttattat-cagGTGGATATGACAAGGAAGATAAGGCTGCGAGGGCTTATGATTTAGCAGCTCTAAA----------------------------------
upper sequence: AT5G10510.2 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv00s1291g00010.t01 (Vitis vinifera), 3'ss of exon 3
aatcaacagtatacttgggtaagaacaaatatcttaatcagtcagcatgtgaataatgttgaatat-gtatctgtggtgtctaactt-tgttaatgattcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
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cgttcgcttcctttgttctttctaacaaatcctctaat-actgggttgaacagtattacagagtattaaattaattatgatggacttgtgtaaattat-cagGTGGGTATGACAAGGAAGAAAAGGCAGCAAGGGCCTATGATTTAGCAGCTCTAAAGTACTGGGGTGCTTCTGCAACTACCAATTTCCCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.catgtgaataatgttgaatatgtatctgtggtgtctaactttgttaatgattcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
aataatgttgaatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aatcaacagtatacttgggtaagaacaaatatcttaatcagtcagcatgtgaataatgttgaatatgtatctgtggtgtctaactttgttaatgattcagGTGGATATGACAAAGAAGATAAGGCAGCTCGAGCTTACGATTTAGCAGCTCTGAAATACTGGAATGCTACTGCTACCACCAATTTCCCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTC
-atcaaca
- - - - - - - - - - - gaacaaa