Sequence
atgc intronic sequence ATGC exonic sequencegtgagtatcatcgtttctttattgtgatttgagttaatcacattgattgaaagtggaatcaagtgtgtgaaatgatcattttgttttcattggtttttccatagATTTTCTTTGATGCGGAAATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCG
Basic information
species | Arabidopsis thaliana |
transcript | AT3G62120.2 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA19G40930.1 (Glycine max), 3'ss of exon 4
----------------------------------------------------------------------------------------------gtgagtatcatcgtttctttattgtgatttgagttaatcacattgattgaaagtggaatcaagtgtgtgaaatgatcattttgttttcattggtttttccatagATTTTCTTTGATGCGGAAATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCG
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gttagtttcttcttcttcttctttttagataaatgaataagtggatgcgtttgtgtatagtgtacttgttttatactagagtttcattcaatgcatgagtgctat-attgcaagaacatgaatacagaattgcagatttatttcttttaaatatttacataagtcagagttgctttaatttcgaaaacaatgt-gcagGAGTTTTTCGATCCAGAAATAAAGAAAATGAAAATCAAGAACTGCTACTTCCCATTGTTTGTATCTCCTGGAGTTCTGCAAAAGGAGAAGGACCACGTTG
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA03G38340.1 (Glycine max), 3'ss of exon 4
------------------------------------------------------------------------------gtgagtatcatcgtttctttattgtgatttgagt-taatcacattgattgaaagt---ggaatcaagtgtgtgaaatgatcattttgttttcattggtttt---tccatagATT-----------TTCTTTGATGCGGAAATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCG
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gtgagtttcttaatttgtgttttgctttagataaatgaatgagtggatgcgtttgtgtatagtgtacttgttttacactcaagttttac--tcaatgtatgggtgttagattgcaagaacattaatacagaattgcagatttatttcttttaaataatttcataggtcagagttgctttaatttcaaaaacaacgtgcagGAGTTTTTCGATCCAGAAATAAAGAAAATGAAAATCAAGAACTGCTACTTCCCATTGTTTGTGTCTCCTGGAGTTCTGCAAAAGGAGAAGGACCACGTTG
upper sequence: AT3G62120.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv07s0005g02620.t01 (Vitis vinifera), 3'ss of exon 4
gtgagtatcatcgtttctttattgtgatttgagttaatcacattgattgaaagtggaatcaagtgtgtgaaatgatcattttgttttcattggtttttccat--agATTTTCTTTGATGCGGAAATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCG
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-tagttgttgctgttaattcctccct-ttctattgtttttcttttcctagactttgaataagatatt----attattgctaaattttgaatgatattgaaatgcagACTTTCTTTGATGCGGAGATTAAGAAGATGAAAATCAAGAATTGCTACTTCCCTCTCTTTGTATCACCTGGTGTTTTACAAAAGGAGAAGGATCACATTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaagtggaatcaagtgtgtgaaatgatcattttgttttcattggtttttccatagATTTTCTTTGATGCGGAAATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCG
tttttccat CT-rich tract
attttgttttcatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtatcatcgtttctttattgtgatttgagttaatcacattgattgaaagtggaatcaagtgtgtgaaatgatcattttgttttcattggtttttccatagATTTTCTTTGATGCGGAAATCAAGAAAATGAAGGTCAAGAATTGCTATTTCCCTCTGTTTGTATCTCCTGGTGTCTTAGAAAAGGAGAAGGACCACATCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAA