Sequence
atgc intronic sequence ATGC exonic sequencegtatgtatagtggttcttgcttgatttaagcgtcttccattagttacaagcttctgagaaatgctattgtttatttcttaagGTACCAATTGAATGCTTTGAACAACCATGGGTTATCTTTAGGGGTGAAGACGGGAAACCAGGATGTGTACGGAATACATGTGCGCATAGAGCATGTCCTC
Basic information
species | Arabidopsis thaliana |
transcript | AT1G44446.2 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA13G03430.1 (Glycine max), 3'ss of exon 4
-------gtatgtatagtggt-tcttgcttgatttaag--cgtctt--ccattagttacaagc---ttctgagaaatgctattgtttatttctta----agGTACCAATTGAATGCTTTGAACAACCATGGGTTATCTTTAGGGGTGAAGACGGGAAACCAGGATGTGTACGGAATACATGTGCGCATAGAGCATGTCCTC
| ||| | ||| || | ||||| ||| | | | ||| || || | || |||| | ||||| | || | ||| || || | ||||| ||||| ||||| ||||||||||||||||| | || |||| ||||| || |||||||| | ||| || ||||| |||||||| || ||||
tatttaagggggtaatggggtgtcatatatgattaaagatagacatactcataagctaaatgcaaattctcataaatg-tgttactccttttctatctcagATCCCAATAGAATGTTTTGAGGAACCATGGGTTATCTTTCGAGGGAAAGATGGGAAGCCTGGATGTGTGCAGAACACCTGTGCACATAGAGCCTGCCCTC
upper sequence: AT1G44446.2 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv18s0001g02700.t01 (Vitis vinifera), 3'ss of exon 3
------------------------------------------------------------------------------------------------------gtatgtatagtggtt-cttgcttgatttaagcgtcttccattagttacaagcttctgagaaatgctattgtttatttcttaagGTACCAATTGAATGCTTTGAACAACCATGGGTTATCTTTAGGGGTGAAGACGGGAAACCAGGATGTGTACGGAATACATGTGCGCATAGAGCATGTCCTC
| | | | ||| || | | || | |||| ||| | | | | | ||| | || || | |||||||| |||||||| |||| |||||| ||||| | || |||| |||||||| |||||||| || || || || || ||||||||||| ||||
gtaagccagttttccaaacatctaaggctcatatttagtgattaaatacagattttccacattgtggctactcaacaatgtcttaagtagcaataagagaggaggcaaacatttatagcttatctggccttgtgataatctgtgagttttc--cttgtaacagttttcacctttttctgtttcagATTCCAATTGATTGCTTTGAGGAACCGTGGGTTGTCTTTCGTGGGCAAGATGGGAAACCTGGATGTGTCCGTAACACCTGCGCCCATAGAGCATGCCCTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aagcgtcttccattagttacaagcttctgagaaatgctattgtttatttcttaagGTACCAATTGAATGCTTTGAACAACCATGGGTTATCTTTAGGGGTGAAGACGGGAAACCAGGATGTGTACGGAATACATGTGCGCATAGAGCATGTCCTC
tttatttctt CT-rich tract
tattgtttatttctta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgtatagtggttcttgcttgatttaagcgtcttccattagttacaagcttctgagaaatgctattgtttatttcttaagGTACCAATTGAATGCTTTGAACAACCATGGGTTATCTTTAGGGGTGAAGACGGGAAACCAGGATGTGTACGGAATACATGTGCGCATAGAGCATGTCCTC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAGCA