Sequence
atgc intronic sequence ATGC exonic sequencegtatctatctctcctctcttactcttgtgagtagtctcgctcattccatcttagattcatctcatcataacttccttacttaattgcttatgtccagTCGAGAAACAGGCGGCTTGAACAGGATTATTGATCGTGGTAGCCGTGCAATAAATTTTATCCTCTCAGCTATGGTTTTCAATGTTGTTCCTACCATATTG
Basic information
species | Arabidopsis thaliana |
transcript | AT5G58270.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA02G40490.1 (Glycine max), 3'ss of exon 4
---gtatctatctct-cctctcttactcttgtgagtagtctcgctcattccatcttagattcatctcatcataacttccttacttaattgc--ttatgtccagTCGAGAAACAGGCGGCTTGAACAGGATTATTGATCGTGGTAGCCGTGCAATAAATTTTATCCTCTCAGCTATGGTTTTCAATGTTGTTCCTACCATATTG
|| |||||| | | | ||||| | | | | | || ||| || | | | | | | || || || || | ||||| |||||||| || | || | || || |||||||||||||| |||| ||||||||| || ||||| ||||||| |||||||| || || ||||||||
aagataatcatctctatttatgcttctctttttcttcattttgagtgttt-gtctattgtttaattgtttac--ccctatcacctagttattgttttttccagCCGAGAAACTGGTGCATTAAGTAGAATAATTGATCGTGGTAGTCGTGGAATAAATTTCATTCTCTCCTCTATGGTGTTCAATGTAGTACCCACCATATTA
upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: GLYMA14G38800.1 (Glycine max), 3'ss of exon 4
-----gtatctatctctcctctcttactcttgtgagtagtctcgctcattccatcttagattcatctcatcataacttccttacttaattgct-tatgtccagTCGAGAAACAGGCGGCTTGAACAGGATTATTGATCGTGGTAGCCGTGCAATAAATTTTATCCTCTCAGCTATGGTTTTCAATGTTGTTCCTACCATATTG
|| | |||| || | || | | | | | || ||| || | | || | || || || || | | | |||||||||||||| || | || | || || |||||||||||||| |||| ||||||||| || ||||| ||||||| |||||||| || || ||||||||
tcacaaaatattcatctcaattcatgcttctcttctgcattttgagtgttt-gtctattgtttact--agtgtacccctctcacctagttattgtttttccagTCGAGAAACTGGTGCATTAAGTAGAATAATTGATCGTGGTAGTCGTGGAATAAATTTCATTCTCTCCTCTATGGTGTTCAATGTAGTACCCACCATATTA
upper sequence: AT5G58270.1 (Arabidopsis thaliana), 3'ss of exon 3
lower sequence: Vv06s0004g08350.t01 (Vitis vinifera), 3'ss of exon 5
--gtatctatctctcctctcttactcttgtgagtagtctcgctcattccatcttagattcatctcatcataacttccttacttaattgct-tatgtccagTCGAGAAACAGGCGGCTTGAACAGGATTATTGATCGTGGTAGCCGTGCAATAAATTTTATCCTCTCAGCTATGGTTTTCAATGTTGTTCCTACCATATTG
|||||| | | | | | | | | || | | | |||| | | || ||| ||| | | | || |||||||| ||||| | | || | || |||||||| |||||||||||||| || ||||| |||||| | ||||| |||||| |||| |||||||| ||
acatatctaatattgatgcttaagatcatcatatttgcctttttaacagttcatttacttatctttgcttttgtttcttgcttgggctttgtgtttctagTCGAGAGACAGGTGCACTAAATCGAATAATTGATCGGGGTAGCCGTGCAATTAACTTTATTCTCTCATCAATGGTATTCAATATTGTACCTACCATCTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.attccatcttagattcatctcatcataacttccttacttaattgcttatgtccagTCGAGAAACAGGCGGCTTGAACAGGATTATTGATCGTGGTAGCCGTGCAATAAATTTTATCCTCTCAGCTATGGTTTTCAATGTTGTTCCTACCATATTG
ttacttaatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatctatctctcctctcttactcttgtgagtagtctcgctcattccatcttagattcatctcatcataacttccttacttaattgcttatgtccagTCGAGAAACAGGCGGCTTGAACAGGATTATTGATCGTGGTAGCCGTGCAATAAATTTTATCCTCTCAGCTATGGTTTTCAATGTTGTTCCTACCATATTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TCAGCT