Sequence
atgc intronic sequence ATGC exonic sequencegtatgcagaatatttataattgcttattatacttctccttctcttacttgtaagcactaaatcattttttcttaaatattttactagcacattatggtgtaacatttttaaatttgatgcagATTGCATTGGGAAATATCTTAAAATTTCGGAAGAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTACTAGTCTTTTCAATGTTTCCAC
Basic information
species | Glycine max |
transcript | GLYMA14G08860.1 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G11800.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatgcagaatatttataattgcttattatacttctccttctcttacttgtaagcactaaatcattttttcttaaatattttactagcacat---tatggtgtaacatttttaaatttgatgcagATTGCATTGGGAAATATCTTAAAATTTCGGAAGAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTACTAGTCTTTTCAATGTTTCCAC
|| | || ||||| || | || | ||| | ||||| ||| | |||| | | |||||||||| ||||||||||| || ||||| ||||| |||||||||||||||||||| |||||||| |||||||| ||| | | |||||||| |||| || |
-----------------------------------------gtaagtttcctatcagtaaattgccttgttttcagcttttca-tagcattcggatattaaatggtgttttctgctgtt-tgcagATTGCTTTGGGAAATATTTTGAAATTCCGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGTATTATATACTTTATCTTGGTCTTTTCGTTGTTCCCTC
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 10
lower sequence: AT4G23000.1 (Arabidopsis thaliana), 3'ss of exon 10
gtatgcagaatatttataattgcttattatacttctccttctcttacttgtaagcactaaatcattttttcttaaatattttactagcacattatggtgtaacatttttaaatttgatgcagATTGCATTGGGAAATATCTTAAAATTTCGGAAGAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTACTAGTCTTTTCAATGTTTCCAC
| | | || | ||| || || || |||||| ||| | || || | || | || || | ||||| ||| || || |||||||||| |||||||||| ||||| || |||| |||||||||||||||||||| ||||||||||| ||||| ||| | | |||||||| |||| || |
-------gtaaactttttcttgtttcttgaac--------ctcttatccacggttactgattcgccttcttttctttgcatt-ctgatattttatgttgt------ttgctgttatttgcagATTGCTCTGGGAAATATTTTAAAGTTCAGGAAAAAGAACTGGCAATTTGATTTCATTGGTGGCATCATATACTTTCTCTTGGTCTTTTCCTTGTTCCCTC
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 10
lower sequence: Vv18s0001g11060.t01 (Vitis vinifera), 3'ss of exon 11
gtatg-cagaatatttataattgcttattatacttctccttctcttacttgtaagcactaaatcattttttcttaaatattttactagcacattatggtgtaacatttttaaatttgatgcagATTGCATTGGGAAATATCTTAAAATTTCGGAAGAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTACTAGTCTTTTCAATGTTTCCAC
||| | ||| || || | || | ||| ||| || | | | | | | | || |||||| || | | | | | ||||||||| | |||||||||||||||||||||||||||| || || || || |||||||| ||||| |||||||| |||||||||||||||||||||||| | || ||||| ||||||||||
gtaaatctgaaaatctacagttcc--attg-gcttgtcaataccaaaaatttcattttatattcctttttttttccttttaatttctcaataatatggtgtattggtc----atttgatgcagATTGCATTGGGAAATATTTTGAAGTTCCGAAAGAAGAATTGGCAGTTTGATTTCATTGGTGGCATTATATATTTTGTATTGGTTTTTTCTATGTTTCCAC
upper sequence: GLYMA14G08860.1 (Glycine max), 3'ss of exon 10
lower sequence: PP1S147_29V6.1 (Physcomitrella patens), 3'ss of exon 10
gtatgcagaatatttataattgcttattatacttctccttctcttacttgtaagcactaaatcattttttcttaaatattttactagcacattatggtgtaacatttttaaatttgatgcagATTGCATTGGGAAATATCTTAAAATTTCGGAAGAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTACTAGTCTTTTCAATGTTTCCAC
| ||| ||| ||| | | || | || | | ||| | || | | | | ||| | | ||| || | | || | ||| || |||| |||||||| || || |||||||| | | |||||| |||||||||||| |||||||||| ||| | || ||||| |||| ||||||||||||||||
------------tatattattttttaaaaaaaagaa-----gctaagttttgaaagataagtaatctgatttggaggtgtttg--aactgatt-tgaactga--ttgaaatgttttatatagATAGCATTGGGCAACATTTTAAAATTCAGAAGGAAGAATTGGCAATTTGATGTTATTGGTGGTATTGTGTACTTTGTGTTAGTGTTTTCAATGTTTCCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcttaaatattttactagcacattatggtgtaacatttttaaatttgatgcagATTGCATTGGGAAATATCTTAAAATTTCGGAAGAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTACTAGTCTTTTCAATGTTTCCAC
tgtaacatttttaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgcagaatatttataattgcttattatacttctccttctcttacttgtaagcactaaatcattttttcttaaatattttactagcacattatggtgtaacatttttaaatttgatgcagATTGCATTGGGAAATATCTTAAAATTTCGGAAGAAGAACTGGCAATTTGATTTTATTGGTGGCATTATATATTTTGTACTAGTCTTTTCAATGTTTCCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG