Sequence
atgc intronic sequence ATGC exonic sequence...gataaaggagattttcatgttctgtgaatatgatttttgctcgatgtgtatgtttatgctgaagaacgattcttatggtttcttccttttttgcttacagGGACCTGAATGCGAGTATCGCCACAGTGAGTATGCGCGTATGAACCCGAGGGATTGCTATTATTGGTTGAATGGAAACTGTTTGAATCCCAAATGTGGAT
Basic information
species | Arabidopsis thaliana |
transcript | AT2G02160.1 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT2G02160.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: GLYMA05G26620.1 (Glycine max), 3'ss of exon 1
gataaaggagattttcatgttctgtgaatatgatttt--tgctcgatgtgtatgtttatgctga-agaacgattcttatggtttcttccttttttgcttacagGGACCTGAATGCGAGTATCGCCACAGTGAGTATGCGCGTATGAACCCGAGGGATTGCTATTATTGGTTGAATGGAAACTGTTTGAATCCCAAATGTGGAT
|| || | | | ||| | ||| ||| ||| | | | || || || || | ||| | || || | ||| | ||||||| |||||||||||| |||||||| |||||||| ||| | || || ||||| || |||||||||| ||| || || ||||||||||||||| ||
-atgtagcaa--tgtaatgcttggtgtatactgctttgatattttgaactctggcttttgttgctagcatcattttgatttgttttcttctttgtcggaacagGGAAATGAATGCGAGTACCGCCACAGCGAGTATGCACGTGTTAATCCTAGGGACTGTCGGTATTGGTTGAGTGGCAATTGCTTGAATCCCAAATGTCCAT
upper sequence: AT2G02160.1 (Arabidopsis thaliana), 3'ss of exon 1
lower sequence: Vv01s0010g01770.t01 (Vitis vinifera), 3'ss of exon 1
gataaaggagattttcatgttctgtgaatatgatt---tttgctcgatgtgtatgtttatgctgaagaacgattcttatggtttcttccttt---tttgcttacagGGACCTGAATGCGAGTATCGCCACAGTGAGTATGCGCGTATGAACCCGAGGGATTGCTATTATTGGTTGAATGGAAACTGTTTGAATCCCAAATGTGGAT
| ||| | || | || ||| | |||| | | || ||| | ||| | | ||| ||| || | ||| ||| | |||||| |||||| ||||||||||| ||||| |||| || |||||||| |||||||||| | ||||||||||| || || |||||||| || ||| |
------agtttctttaaaattttaaaaacttgaataaatttgtttgttgcttatatatatcattggtgatttatctaatgcttcttgattttacccttgttatcagGGAAGTGAATGTGAGTATCGCCATAGTGAACATGCCCGGATGAACCCTAGGGATTGCTGGTTCTGGTTGAATGGTAATTGCTTGAATCCAAAGTGTTCGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgtatgtttatgctgaagaacgattcttatggtttcttccttttttgcttacagGGACCTGAATGCGAGTATCGCCACAGTGAGTATGCGCGTATGAACCCGAGGGATTGCTATTATTGGTTGAATGGAAACTGTTTGAATCCCAAATGTGGAT
ttcttatggtttcttc CT-rich tract
attcttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gataaaggagattttcatgttctgtgaatatgatttttgctcgatgtgtatgtttatgctgaagaacgattcttatggtttcttccttttttgcttacagGGACCTGAATGCGAGTATCGCCACAGTGAGTATGCGCGTATGAACCCGAGGGATTGCTATTATTGGTTGAATGGAAACTGTTTGAATCCCAAATGTGGAT
gataaag
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gaagaac