Sequence
atgc intronic sequence ATGC exonic sequencegtatgttctatcttttgacttaagatatctcactacaaaaagaaaatgtatcacaaactaaagtaaatgagtttggatattttgatttgcagGATGTTTCTAGAGTCATGCAAGAGGTTGAGAATAATGAAAAGATCGGATGCTACCGGGTTTGGGCTGCAGCCTAGAGGAGTAGACGAGTGATGATGACTT
Basic information
species | Arabidopsis thaliana |
transcript | AT3G15540.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT3G15540.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA13G43780.1 (Glycine max), 3'ss of exon 2
----gtatgttctatcttttg--acttaagata-tctcactacaaaaagaaaatgtatcacaaactaaagta--aatgagtttggatattttgatttgcagGATGTTTCTAGAGTCATGCAAGAGGTTGAGAATAATGAAAAGATCGGATGCTACCGGGTTTGGGCTGCAGCCTAGAGGAG-TAGACGAGTGATGATGACTT
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atccttat-ttctatttgaagctacatataatagttttattttgctatttaaactttatacaaatatatgtgttcatgtagaaagtggaacttttttgcagGATGTTTATTGAGTCATGCAAGAGGTTGAGGATTATGAAGAGATCAGATGCAAAGGGCTTCGATCTGCAACCAAAAGGGTCTTTAAAAGGATTTATAGAA-
upper sequence: AT3G15540.1 (Arabidopsis thaliana), 3'ss of exon 2
lower sequence: GLYMA15G01560.1 (Glycine max), 3'ss of exon 2
gtatgttctatcttttg--acttaagatatctcactacaaaaagaaaatgtatcacaaacta----aagtaaatgagtt----tggatattttga--tttgcagGATGTTTCTAGAGTCATGCAAGAGGTTGAGAATAATGAAAAGATCGGATGCTACCGGGTTTGGGCTGCAGCCTAGAGGAGTAGACGAGTGATG-ATGACTT
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----tttctatttgaagctatatataatagttttattttgttattttttctattttaaatttatacaagtatatgtgttcatatagaaagtgggacttttgcagGATGTTTATTGAGTCATGCAAGAGGTTGAGGATTATGAAGAGATCAGATGCAAAGGGCTTCGATCTGCAACCAAAAGGGTCTTTAAAGGGATTTATAGAA- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaagaaaatgtatcacaaactaaagtaaatgagtttggatattttgatttgcagGATGTTTCTAGAGTCATGCAAGAGGTTGAGAATAATGAAAAGATCGGATGCTACCGGGTTTGGGCTGCAGCCTAGAGGAGTAGACGAGTGATGATGACTT
aaactaaagtaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttctatcttttgacttaagatatctcactacaaaaagaaaatgtatcacaaactaaagtaaatgagtttggatattttgatttgcagGATGTTTCTAGAGTCATGCAAGAGGTTGAGAATAATGAAAAGATCGGATGCTACCGGGTTTGGGCTGCAGCCTAGAGGAGTAGACGAGTGATGATGACTT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGCAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGGAG