Sequence
atgc intronic sequence ATGC exonic sequencegtagaacgataattacttatttcgttataacttatttattgatgggagattctaggataaatggtcttcttttgtggcaagcagATGGGTAAATTCTATGAGCTTTTTGAGATGGATGCACATGTCGGAGCTAAGGAACTGGATATACAATACATGAAG
Basic information
species | Arabidopsis thaliana |
transcript | AT4G02070.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G02070.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GRMZM2G421541_T02 (Zea mays), 3'ss of exon 4
gtagaacgataattacttat---ttcgttataacttatttattgatgggagattctaggataa--atggtcttcttttgtggcaagcagATGGGTAAATTCTATGAGCTTTTTGAGATGGATGCACATGTCGGAGCTAAGGAACTGGATATACAATACATGAAG
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gtacatttatattttgccacaagttacttggtacttaaatgcaactattttatttagtgattacaataataaaatatgaatttgaatagATGGGCAAATTCTACGAACTATTTGAGATGGATGCACATGTTGGAGCAAAGGATCTTGATCTTCAGTACATGAAG
upper sequence: AT4G02070.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA03G37750.1 (Glycine max), 3'ss of exon 2
------gtagaacgataattacttatttcgttataacttatttattgatgggagatt-ctaggataaatggtcttcttttgtggcaa----gcagATGGGTAAATTCTATGAGCTTTTTGAGATGGATGCACATGTCGGAGCTAAGGAACTGGATATACAATACATGAAG
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gtttgagttggctaagttttgttggtgccatta--gtccatttccttacaagttatgaccaaatgaaatatttttcctccctattgttggtgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGAGAAAGAGCTTGACTTGCAGTATATGAAG
upper sequence: AT4G02070.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA19G40350.1 (Glycine max), 3'ss of exon 4
------gtagaacgataattacttatttcgttataac-ttatttattgatgggagattctaggataaatggtcttcttttgtggcaa-gcagATGGGTAAATTCTATGAGCTTTTTGAGATGGATGCACATGTCGGAGCTAAGGAACTGGATATACAATACATGAAG
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gtttgagttggttaagttttgttggtgccattattccattccttacaagttacaaccaaatgaaatatttttcctccctattgttgatgcagATGGGTAAATTTTATGAGCTTTTTGAGATGGATGCACATGTAGGTGCGAAAGAGCTTGACTTGCAGTATATGAAG
upper sequence: AT4G02070.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: PP1S152_6V6.1 (Physcomitrella patens), 3'ss of exon 4
------gtagaacgataattacttatttcgttataacttatttattgatgg-gagattctaggataaatg-gtcttcttttgtggcaa--------gcagATGGGTAAATTCTATGAGCTTTTTGAGATGGATGCACATGTCGGAGCTAAGGAACTGGATATACAATACATGAAG
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atgtccgcagtaaagaaagtactttcgtgtcaagaaatcgttgctagatcttaagatgctatgttcagtgtattgacagctggatcaattctctctgtagATGGGAAAATTCTATGAGATGTTTGAAATGGATGCACATATCGGTGCGAAGGAGCTGGACTTGCAGTATATGAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttatttattgatgggagattctaggataaatggtcttcttttgtggcaagcagATGGGTAAATTCTATGAGCTTTTTGAGATGGATGCACATGTCGGAGCTAAGGAACTGGATATACAATACATGAAG
tcttcttttgt CT-rich tract
tttattgat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtagaacgataattacttatttcgttataacttatttattgatgggagattctaggataaatggtcttcttttgtggcaagcagATGGGTAAATTCTATGAGCTTTTTGAGATGGATGCACATGTCGGAGCTAAGGAACTGGATATACAATACATGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA