Sequence
atgc intronic sequence ATGC exonic sequence...ctcaggtagttatgcatctttttttttgtgcatgtgaaaaggggggtaatttggtgcaatcctctgcatttttttgaaacttttttaaattgtatttcagAAAGCTATATATTGTTGATGCACGGCCTAGGAAAAATGCATTGGCTAATGGTGCCATGGGAGGTGGTTCAGAATCATCATCAAACTATTTTCAATCCGAG
Basic information
species | Glycine max |
transcript | GLYMA20G33040.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G33040.1 (Glycine max), 3'ss of exon 4
lower sequence: AT3G10550.1 (Arabidopsis thaliana), 3'ss of exon 10
ctcaggtagttatgcatctttttttttgtgcatgtga-aaaggggggtaatttggtgcaatcctc------tgcatttttttgaaacttttttaaattgtatttc--agAAAGCTATATATTGTTGATGCACGGCCTAGGAAAAATGCATTGGCTAATGGTGCCATGGGAGGTGGTTCAGAATCATCATCAAACTATTTTCAATCCGAG
|| | | | || ||| | ||||| || | || |||| | | |||| || | | | | |||| || || || || ||||| ||||||| ||||||| | ||||||||||||||||| || ||||| || ||||||||||| ||||||||||| || || ||||||||||| ||
---------tttttccttttcatttacaagtatgtgttgaactcaactcatgtggtttatagttacaaagatgcacttatctcatcttgtttttgtttttactttgtagGAAGCTTTATATTGCTGATGCAAGACCTAGGAAAAATGCATTAGCCAATGGAGCAATGGGAGGTGGCTCAGAATCATCTTCCAATTATTTTCAATCTGAA
upper sequence: GLYMA20G33040.1 (Glycine max), 3'ss of exon 4
lower sequence: AT5G04540.1 (Arabidopsis thaliana), 3'ss of exon 10
ctcaggtagttatgcatctttttttttgtgcatgtgaaaaggggggtaatttggtgcaatcctctgcatttttttgaaacttttttaaattgtatttcagAAAGCTATATATTGTTGATGCACGGCCTAGGAAAAATGCATTGGCTAATGGTGCCATGGGAGGTGGTTCAGAATCATCATCAAACTATTTTCAATCCGAG
| | | | | ||| | | |||| | | | || | || ||| | ||| || | | || ||||| ||||| || |||||| | ||||||||||||||||| || ||||| || | |||||| || ||||||||||| ||||| ||||| ||||| ||
ataaaaaaatactctgctgtttcatatctgcaatgtggttgaatgttgatacctggttattaaaaatattcacgtactctcctttgtttttatgtcatagGAAGCTTTATATCGTAGATGCAAGACCTAGGAAAAATGCATTAGCAAATGGAGCAAAGGGAGGAGGCTCAGAATCATCTTCAAATTATTTGCAATCTGAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaatttggtgcaatcctctgcatttttttgaaacttttttaaattgtatttcagAAAGCTATATATTGTTGATGCACGGCCTAGGAAAAATGCATTGGCTAATGGTGCCATGGGAGGTGGTTCAGAATCATCATCAAACTATTTTCAATCCGAG
atttttttgaaacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
ctcaggtagttatgcatctttttttttgtgcatgtgaaaaggggggtaatttggtgcaatcctctgcatttttttgaaacttttttaaattgtatttcagAAAGCTATATATTGTTGATGCACGGCCTAGGAAAAATGCATTGGCTAATGGTGCCATGGGAGGTGGTTCAGAATCATCATCAAACTATTTTCAATCCGAG
- - - - - tatgcat
- - - - - - - - - - - - - - tgcatgt
- - - - - - - - - - - - - - - - - - - - ggggggt
- - - - - - - - - - - - - - - - - - - - - - - - - -tggtgca