Sequence
atgc intronic sequence ATGC exonic sequence...aaatcacatatctatttcaccatatatctctattcatatttatgcacttcaataatgtatgtaataaattttgttttgttccgatttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTAGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
Basic information
species | Glycine max |
transcript | GLYMA08G05480.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 10
lower sequence: LOC_Os01g02884.1 (Oryza sativa), 3'ss of exon 4
-aaatcacatat--ctatttcaccatatatctctattcatatttatgcacttcaataatgtatgtaataaattttgttttgttccgatttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTAGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
| ||| | | || | || | | | | |||| | || | || || || | || ||| | || | | | | |||||| | |||||||| | ||||| || || |||||||||||||| ||||| || ||||||| || |||||||| ||||||||||| || |||||||
caggtcatttgcagccatat-acagaaagcaccaaatgatatctgtgtcttctcttataccatttatcatatattgat--attactgcctctttgctgtgcagAAACTAATATTTGATAGACCTGAGCCTGGTGTAAGGAAAATTGTTCTTGCAACCAATTTGGCTGAAACAAGTATTACTATCAATGATGTAGTTTTTGTGG
upper sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 10
lower sequence: AT1G48650.1 (Arabidopsis thaliana), 3'ss of exon 10
-------------------------aaatcacatat-ctatttcaccatatatctctattc--atatttatgcacttcaataatgtatgtaataaattttgttt-tgttccgatttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTAGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
| | || | | | || || || | ||| | |||||| ||| | ||| || || || | |||| |||| | |||| |||||| |||| ||||| | ||| || ||| | |||||||| || || || || || ||||||||||| ||||| ||||||||||||||||| | ||||
gtaaatctagtgtccattatttgcctatctatgcatacaagtacaacacatgttataattttaaaatttatcttattctgctcttgctgtcattttttatgatgatgttttcattt-tattttctacagAGGCTGATTTTTGATAGACCTCCAGAAGGAATTAGGAAAATAGTACTGGCCACCAATATGGCTGAGACAAGTATCACCATCAATGATGTTGTATATGTGA
upper sequence: GLYMA08G05480.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv17s0000g03030.t01 (Vitis vinifera), 3'ss of exon 9
aaatcacatatctatttcaccatatatctctattcatatttatgcacttcaataatgtatgtaataaattttgtttt-------gttccgatttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTAGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
| | | || | ||||| | ||| | || | | |||||| ||| | ||||||| || || || | |||||||||| |||||||| || || |||| || || |||||||| ||||| || || |||||||||||||||||||| ||||| |||||||| || |||||||
------gaaacttgctttaaattatatatgatttctaacttggttaaat-ggtaatgtttgtttccacccttgttttcctgaccattttgaactggtttgcatgcagAGGTTAATATTTGATAAGCCGGAAGATGGAGTAAGGAAAATAGTTCTTGCTACCAACATGGCTGAGACTAGTATCACCATTAATGATGTGGTTTTTGTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttcaataatgtatgtaataaattttgttttgttccgatttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTAGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
tttgcctcttctgc CT-rich tract
aataatgtatgtaata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaatcacatatctatttcaccatatatctctattcatatttatgcacttcaataatgtatgtaataaattttgttttgttccgatttgcctcttctgcagAGGTTGATATTTGAAAATCCTGAAGGAGGGGTGAGGAAAATTGTTCTAGCAACTAACATGGCTGAGACTAGTATTACCATCAATGATGTTGTCTTTGTGG
-aatcaca
- - - - - - - - tcaccat
- - - - - - - - - - - - - - -ctattca
- - - - - - - - - - - - - - - - - - - - tatgcac
- - - - - - - - - - - - - - - - - - - - - - - - - - - -tgtatgt