Sequence
atgc intronic sequence ATGC exonic sequencegtgatgatcatctaaaccattttatatcactgtaaagcaatacttacacataacttggtgatgaggttactgaagcaaacccatccttataacgcagTATGTTGAAGTAGTCCCACAAATGGAGAAAGAGAGACGTTTGGAGCAAATCCTTAGGTCACAAGAACGAGGTTCAAAAGTTATAATATTTTGCTCCACGA
Basic information
species | Arabidopsis thaliana |
transcript | AT3G06480.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G06480.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA15G14470.1 (Glycine max), 3'ss of exon 4
--gtgatgatcatctaaaccattttatatcactgtaaagcaatacttacacataacttg-gtgatgaggttactgaagcaaacccatccttataac--gcagTATGTTGAAGTAGTCCCACAAATGGAGAAAGAGAGACGTTTGGAGCAAATCCTTAGGTCACAAGAACGAGGTTCAAAAGTTATAATATTTTGCTCCACGA
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ctgtaat-atgttccaaatgaaga-acaatatttttgttttaagtttcttggtgacttatattcttttttcccttgcatatatgtaatttgtaaactggcagTATGTTGAAGTTGTTCCACAAATGGAGAAACAGAGGCGTTTGGAGCAAATCCTCAGATCCCAAGAACGGGGTTCTAAGGTCATAATATTTTGTTCCACAA
upper sequence: AT3G06480.1 (Arabidopsis thaliana), 3'ss of exon 6
lower sequence: GLYMA09G03560.1 (Glycine max), 3'ss of exon 7
gtgatgatcatctaaaccattttatatcactgtaaagcaatacttacacataa----cttggtgatg-aggtta--------ctgaagcaaacccatccttataac--gcagTATGTTGAAGTAGTCCCACAAATGGAGAAAGAGAGACGTTTGGAGCAAATCCTTAGGTCACAAGAACGAGGTTCAAAAGTTATAATATTTTGCTCCACGA
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----------actgtaatatgttcca--aatgaagaacaatatttttgttttagtttcttggtgatttacattcttttttgccttgcatatatgtaatttgtaaactggcagTATGTTGAAGTTGTCCCACAAATGGAGAAACAGAGGCGTTTGGAGCAGATTCTCAGATCCCAAGAACGGGGTTCTAAGGTTATAATATTTTGTTCCACAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cttacacataacttggtgatgaggttactgaagcaaacccatccttataacgcagTATGTTGAAGTAGTCCCACAAATGGAGAAAGAGAGACGTTTGGAGCAAATCCTTAGGTCACAAGAACGAGGTTCAAAAGTTATAATATTTTGCTCCACGA
cccatcctt CT-rich tract
ttataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgatgatcatctaaaccattttatatcactgtaaagcaatacttacacataacttggtgatgaggttactgaagcaaacccatccttataacgcagTATGTTGAAGTAGTCCCACAAATGGAGAAAGAGAGACGTTTGGAGCAAATCCTTAGGTCACAAGAACGAGGTTCAAAAGTTATAATATTTTGCTCCACGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAC