Sequence
atgc intronic sequence ATGC exonic sequence...gtaaatttttgtgcttgttttgcgatgattgtattcttcttgaaaagtaagaacaactagactagtacttatgcctttgcctgttacatttgctctccagACGATTGCAACAGTCTGCATGCTCCTAGCTGGGAAGGTTGAGGAAACTCCAGTGACATTAGAAGACGTTATTATTGCCTCATATGAGAGAATACACAAGA
Basic information
species | Arabidopsis thaliana |
transcript | AT4G19560.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT4G19560.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA20G02880.1 (Glycine max), 3'ss of exon 2
---gtaaatttttgtgcttgttttgcgatgattgtattcttcttgaaaagtaagaacaactagactagtacttatgcctttgcctgttacatttgctctccagACGATTGCAACAGTCTGCATGCTCCTAGCTGGGAAGGTTGAGGAAACTCCAGTGACATTAGAAGACGTTATTATTGCCTCATATGAGAGAATACACAAGA
||| || | | | | | || | || | || ||| | ||| | | | | || | || | | || | | ||||| |||||||| ||||| ||| |||| |||||||||||||| || ||||| || || | || |||||| ||| || ||||||| || |||||||
ttcctaatttatattaagagaatggtagatgttaaagcattat--aattttaaagattacttaatcaaaatctcataattcacttgatgaactt-ttttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA
upper sequence: AT4G19560.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA07G35010.1 (Glycine max), 3'ss of exon 2
gtaaatttttgtgcttgttttgcgatgatt---gtattcttcttgaaaagt----aagaacaactagactagtacttatgcctttgcctgttacatttgctctccagACGATTGCAACAGTCTGCATGCTCCTAGCTGGGAAGGTTGAGGAAACTCCAGTGACATTAGAAGACGTTATTATTGCCTCATATGAGAGAATACACAAGA
| || | || | || || || | || || | ||| |||| | || | | ||| || || | || | | || | ||||| |||||||| ||||| ||| |||| |||||||||||||| || ||||| || || | || |||||| ||| || ||||||| || |||||||
--aggttccta-atttatattaagagaatgtagatgttaaagctgtatagttttaaagattacttaatcaaaaactcataa-ttcacttgatgaactt---ttgcagACCATTGCAACGGTCTGTATGTTCCTTGCTGGGAAGGTTGAAGAGACTCCTCGTCCACTAAAGGATGTTATTCTTGTTTCTTATGAGATCATTCACAAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agtaagaacaactagactagtacttatgcctttgcctgttacatttgctctccagACGATTGCAACAGTCTGCATGCTCCTAGCTGGGAAGGTTGAGGAAACTCCAGTGACATTAGAAGACGTTATTATTGCCTCATATGAGAGAATACACAAGA
tttgctctcc CT-rich tract
ttacattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatttttgtgcttgttttgcgatgattgtattcttcttgaaaagtaagaacaactagactagtacttatgcctttgcctgttacatttgctctccagACGATTGCAACAGTCTGCATGCTCCTAGCTGGGAAGGTTGAGGAAACTCCAGTGACATTAGAAGACGTTATTATTGCCTCATATGAGAGAATACACAAGA
- - - - - - - -tgttttg
- - - - - - - - - - - - - - - - - - - - -gaaaagta
- - - - - - - - - - - - - - - - - - - - - - - - -agaacaa