Sequence
atgc intronic sequence ATGC exonic sequencegttattttctcgtcgctttgtatgtcttaaagttatctttactcaaatcttcatttttttgaagctgtttgcttttttttttaacagATCATTATCAAAATTGCTGCTGGGAATGGAGTTGGACAAATTTTAGTTGGAAA
Basic information
species | Arabidopsis thaliana |
transcript | AT5G51820.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA20G29230.1 (Glycine max), 3'ss of exon 4
gttattttctc-------gtcgctttg-----tatgtcttaaagttatctttac----tcaaatcttcatttttttgaagctgtttgctttttttttta----acagATCATTATCAAAATTGCTGCTGGGAATGGAGTTGGACAAATTTTAGTTGGAAA
||||| | | || || | | | | || || | |||| || | || | ||||| | | | ||| |||||| | |||||| || ||||||||||||||||| ||||| |||||| ||||| |||||||| |
gttatcctttttgaatgtatcactatagcaatcagatttaaagcttgtatttagagaatcgtttttttttattttttattttttatgccattttttgtgcattacagATAATAATCAAAATTGCTGCTGGAAATGGTGTTGGAAAAATTCTAGTTGGACA
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: GLYMA10G38590.1 (Glycine max), 3'ss of exon 4
-----gttattttctcgtcgctttgtatgtcttaaagtta--tctt-tactcaaatcttcatttttttgaagctgtttgct----tttttttt---taacagATCATTATCAAAATTGCTGCTGGGAATGGAGTTGGACAAATTTTAGTTGGAAA
| ||| || | || | | | ||| |||| || | | | ||||||| || | | |||||| |||||| | | ||||| || ||||||||||||||||| ||||| |||||| ||||| | ||||||||
gtcaacctttttgaatgtgtcacaatagcaatcagatttaaatcttgtatttagagaatcattttgtttctgatttttgctgccattttttgtgcattgcagATAATAATCAAAATTGCTGCTGGAAATGGTGTTGGAAAAATTCTGGTTGGAAA
upper sequence: AT5G51820.1 (Arabidopsis thaliana), 3'ss of exon 4
lower sequence: Vv16s0022g02320.t01 (Vitis vinifera), 3'ss of exon 4
gttattttctcgtcgctttgtatgtcttaaagttatctttactcaaatcttcatttttttgaagctgtttgcttttttttttaa--cagATCATTATCAAAATTGCTGCTGGGAATGGAGTTGGACAAATTTTAGTTGGAAA
| ||| | || || | ||| |||| | | | || | | || |||||| | || | || || ||||| |||||||||||||| || || ||||| |||||| |||| |||||||| ||
-gtctttctttatcatatttcctaaattacagttgttgtaagtctgtattattcctgaatgttgctgtt-gtttgtattcaaaatgcagATAATTATCAAAATTGCAGCAGGAAATGGCGTTGGAAAAATATTAGTTGGCAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatctttactcaaatcttcatttttttgaagctgtttgcttttttttttaacagATCATTATCAAAATTGCTGCTGGGAATGGAGTTGGACAAATTTTAGTTGGAAA
ctgtttgctttttttt CT-rich tract
tttgctttttttttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gttattttctcgtcgctttgtatgtcttaaagttatctttactcaaatcttcatttttttgaagctgtttgcttttttttttaacagATCATTATCAAAATTGCTGCTGGGAATGGAGTTGGACAAATTTTAGTTGGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGCTGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT