Sequence
atgc intronic sequence ATGC exonic sequencegtctgtgatgtgatatcggtgaggagcttcatctagctcttgtttccgttaatttgctagtttttatatattttatagtttctagcagtagtgttctcatactctttcattggcagTTGTACAAATGTGAATTTTGCATTCCGTGGGGTTTGTAACCGCTGTGGAACTGCTAGACCAGCTGGTGCATCTGGTGGCAGCATGGGTGCTGGTCGTGGA
Basic information
species | Arabidopsis thaliana |
transcript | AT1G50300.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G50300.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA12G03260.1 (Glycine max), 3'ss of exon 2
gtctgtgatgtgatatcggtgaggagcttcatctagctcttgtttccgttaatttgctagtttttatatattttatagtttctagcagtagtgttctcatactctttcattggcagTTGTACAAATGTGAATTTTGCATTCCGTGGGGTTTGTAACCGCTGTGGAACTGCTAGACCAGCTGGTGCATCTGGTGGCAGCATGGGTGCTGGTCGTGGA
||||||||| ||| || |||||| |||| ||| |||||| | | | | | | ||||| || |||| || || | || || | | ||| |||| ||||||| | |||||||| ||||| || ||||| | |||||| ||||||||||||||| | || |||||||| ||||| || || ||| |||
gtctgtgatatgaaattggtgagcagctctttcttgctcttctactcact--tcagtca--ttttagatgatttagtgtagagag-aataacattttttt-ttctctcat-agCAGTTGCTCCAATGTGAACTTTGCTTTTCGTGGTGCTTGTAATCGCTGTGGAACTGCTCGTCCTGCTGGTGCTTCTGGAATTTCAGGGGCTGGTGGCCGT---
upper sequence: AT1G50300.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA11G11060.1 (Glycine max), 3'ss of exon 2
gtctgtgatgtgatatcggtgaggagcttcatctagctcttgtttccgttaatttgctagtttttatatattttatagtttctagcagtagtgttctcatactctttcattggcagTTGTACAAATGTGAATTTTGCATTCCGTGGGGTTTGTAACCGCTGTGGAACTGCTAGACCAGCTGGTGCATCTGGTGGCAGCATGGGTGCTGGTCGTGGA
||||||||| ||| || |||||| |||| ||| |||||| | | | | | | ||||| || |||| || || | || || | | || || | ||||||| | |||||||| ||||| || ||||| | |||||| ||||||||||||||| | || |||||||| ||||| || || ||| |||
gtctgtgatatgaaattggtgagcagctctttcttgctcttctactcact--tcagtca--ttttagatgatttagtattgagag-aataacattttt---ccctctcgt-agCAGTTGCTCCAATGTGAACTTTGCTTTTCGTGGTGCTTGTAATCGCTGTGGAACTGCTCGTCCTGCTGGTGCTTCTGGAATTTCAGGGGCTGGTGGCCGT--- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttttatatattttatagtttctagcagtagtgttctcatactctttcattggcagTTGTACAAATGTGAATTTTGCATTCCGTGGGGTTTGTAACCGCTGTGGAACTGCTAGACCAGCTGGTGCATCTGGTGGCAGCATGGGTGCTGGTCGTGGA
ttctcatactctttc CT-rich tract
tatattttatagtttc 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgtgatgtgatatcggtgaggagcttcatctagctcttgtttccgttaatttgctagtttttatatattttatagtttctagcagtagtgttctcatactctttcattggcagTTGTACAAATGTGAATTTTGCATTCCGTGGGGTTTGTAACCGCTGTGGAACTGCTAGACCAGCTGGTGCATCTGGTGGCAGCATGGGTGCTGGTCGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG