Sequence
atgc intronic sequence ATGC exonic sequencegtatcactttcgcctcctttacccagcagtactataaattcctggatctctctccttcgttttcgtgagcatgccttgtttatcgattgttcaaattagGAAGAGAACAGAATTTTGGACAAGTTGCACAGACAAAAGGTTGCAGAAGTTGAAAAGTTTACCCAGACCGTACGGGAGCTTGAAGAAGCTGTTCTTGCTG
Basic information
species | Arabidopsis thaliana |
transcript | AT2G01750.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G01750.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GRMZM2G039325_T01 (Zea mays), 3'ss of exon 5
----------gtatcactttcgcctcctttacccagcagtactataaattcctggatctctctccttcgttttcgtgagcatg--ccttgtttatcgatt-gttcaaatt--agGAAGAGAACAGAATTTTGGACAAGTTGCACAGACAAAAGGTTGCAGAAGTTGAAAAGTTTACCCAGACCGTACGGGAGCTTGAAGAAGCTGTTCTTGCTG
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gtaagtgggtgcatgcagtttattccctatcatgagaag-acaatagacaac---aacttggcattccaattgaattagtttagtgctaattgattgatttgtttgcactgcagGAAGAAAATAAAATCTTAGATAAGCTGCATCGCCAAAAGATTGCAGAAGTTGAAAAGCTTAGCCAAACTGTGAGGGAGTTGGAAGAAGCTGTTCTTCAAG
upper sequence: AT2G01750.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA05G34560.1 (Glycine max), 3'ss of exon 5
gtat---cactttcgcctcct-ttacccagcagtactataaattcctggatctctctccttcgttttcgtgagcatgccttgtttatcgattgttcaaattagGAAGAGAACAGAATTTTGGACAAGTTGCACAGACAAAAGGTTGCAGAAGTTGAAAAGTTTACCCAGACCGTACGGGAGCTTGAAGAAGCTGTTCTTGCTG
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gtatttgcaatttcgtatggtgtttccctctccaagtatgccagccttaataatgtaatttcttatatttggttttggtatcatcatcacctctcc----tagGAAGAAAATAAAATTTTGGACAAAATGCATAGACTGAAGGTGGCAGAGGTTGAAAAGCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAG
upper sequence: AT2G01750.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA08G05100.1 (Glycine max), 3'ss of exon 5
gtatcactttcgcctcctttacccagcagtactataaattcctggatctctctccttcgttttcgtgagcatgccttgtttatcgattgttcaaattagGAAGAGAACAGAATTTTGGACAAGTTGCACAGACAAAAGGTTGCAGAAGTTGAAAAGTTTACCCAGACCGTACGGGAGCTTGAAGAAGCTGTTCTTGCTG
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---gtatttgcaattttgtattgtgtttctctctcaagtatgccagacataataatgtaatttctgacatttggtttcatcatcacctctcc----cagGAAGAAAATAAAATTTTGGACAAAATGCATAGACTGAAGGTGGCAGAGGTTGAAAAGCTTACCCAAACCGTGAGAGAACTAGAAGAGGCTGTCCTTGCAG
upper sequence: AT2G01750.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: Vv01s0011g05790.t01 (Vitis vinifera), 3'ss of exon 5
---------------------------------------------------gtatcactttcgcctcctttacccagcagtactataaattcctggatctctctccttcgttttcgtgagcatgc-cttgtttatcga----ttgttcaaattagGAAGAGAACAGAATTTTGGACAAGTTGCACAGACAAAAGGTTGCAGAAGTTGAAAAGTTTACCCAGACCGTACGGGAGCTTGAAGAAGCTGTTCTTGCTG
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gtattgtgattgcccatgctgttttgttttccaatgcaatgtgaacttggggcat-attatcttttcttttattt---tgttttggattttttttgtgtaatcttcctttgtttaattagcatgagtttatatgtcaaatccttttgtatactagGAAGAAAATAAAATTTTGGATAAGATGCATCGCCAAAAGGTTGCAGAGGTTGAAAAACTAACCCAAACTGTAAGGGAGCTTGAAGAGGCTGTTCTGGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatctctctccttcgttttcgtgagcatgccttgtttatcgattgttcaaattagGAAGAGAACAGAATTTTGGACAAGTTGCACAGACAAAAGGTTGCAGAAGTTGAAAAGTTTACCCAGACCGTACGGGAGCTTGAAGAAGCTGTTCTTGCTG
ttcaaatta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatcactttcgcctcctttacccagcagtactataaattcctggatctctctccttcgttttcgtgagcatgccttgtttatcgattgttcaaattagGAAGAGAACAGAATTTTGGACAAGTTGCACAGACAAAAGGTTGCAGAAGTTGAAAAGTTTACCCAGACCGTACGGGAGCTTGAAGAAGCTGTTCTTGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT