Sequence
atgc intronic sequence ATGC exonic sequencegtatgttttaaattcaattagctatttttcatgctttctgttcatcctcttgtaaatccaagttacgtacagttgctgttctgtcactagGTAGACAAGATGGAAGAGGTTGCACAAGGAAGGGTTTGGACTGGTAAGGACGCAGCTTCTCACGGTTTGGTTGATGCTATTGGTGGCCTTTCTCGAGCTG
Basic information
species | Glycine max |
transcript | GLYMA17G09020.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA17G09020.2 (Glycine max), 3'ss of exon 4
lower sequence: AT1G73990.1 (Arabidopsis thaliana), 3'ss of exon 11
gtatgttttaaattcaattagctatttttcatgctttctgttcatcctcttgtaaatccaagttacgtacagttgctgttctgtcactagGTAGACAAGATGGAAGAGGTTGCACAAGGAAGGGTTTGGACTGGTAAGGACGCAGCTTCTCACGGTTTGGTTGATGCTATTGGTGGCCTTTCTCGAGCTG
|| || | |||| | |||| | | | | || || || || | || | | || || | | || |||||| |||||||||||||| |||||||| || || || ||||| |||||||| || ||||| ||| | | |||||| | ||||| || || ||||||
----gtatttgttccaatc--ttgttttctttcttgtattcctatgctttttcaagactaaat-atttattcttaccat---gttcctagGTCGACAAGATGGAAGAAGTTGCACAGGGCAGAGTGTGGACCGGTAAGGATGCTCATTCTCGTGGTCTAATAGATGCTGTCGGTGGGCTGTCCCGAGCTA
upper sequence: GLYMA17G09020.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g04700.t01 (Vitis vinifera), 3'ss of exon 3
gtatgttttaaattcaattagctatttttcatgctttctgttcatcctcttgtaaatccaagttacgtacagttgctgttctgtcactagGTAGACAAGATGGAAGAGGTTGCACAAGGAAGGGTTTGGACTGGTAAGGACGCAGCTTCTCACGGTTTGGTTGATGCTATTGGTGGCCTTTCTCGAGCTG
||||||| |||| | || | || | || | | | | | || |||| | || ||| | ||||||| |||||||| ||| || ||||| || |||||||||||||| || |||||||| | ||||||||||||||||||||||| || ||||| ||||
gtatgttggcaattttaatattcacctt--aaaattgcaataattttctctctccatgaaagtccctgtca--------tctttggtcagGTAGATAAGATGGAGGAGAAAGCTCAAGGGAGAGTTTGGACTGGTAAAGATGCAGCTTCACGAGGTTTGGTTGATGCTATTGGTGGGCTCTCTCGTGCTG
upper sequence: GLYMA17G09020.2 (Glycine max), 3'ss of exon 4
lower sequence: Vv17s0000g04690.t01 (Vitis vinifera), 3'ss of exon 7
gtatgttttaaattcaattagctatttttcatgctttctgttcatcctcttgtaaatccaagttacgtacagttgctgttctgtcactagGTAGACAAGATGGAAGAGGTTGCACAAGGAAGGGTTTGGACTGGTAAGGACGCAGCTTCTCACGGTTTGGTTGATGCTATTGGTGGCCTTTCTCGAGCTG
||||||| |||| | | | || | | | | | | || || | | || ||| | | ||||||| |||||||| ||| ||| ||||| || |||||||||||||| || |||||||| | |||||||| |||||||||||||| || ||||| ||||
gtatgttggcaattttaacattcaccttcaaattgcaataattttttctctctccattaaactccctgtca--------tctttggccagGTAGATAAGATGGAGGAGAATGCTCAAGGGAGAGTTTGGACTGGTAAAGATGCAGCTTCACGAGGTTTGGTCGATGCTATTGGTGGGCTCTCTCGTGCTG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttctgttcatcctcttgtaaatccaagttacgtacagttgctgttctgtcactagGTAGACAAGATGGAAGAGGTTGCACAAGGAAGGGTTTGGACTGGTAAGGACGCAGCTTCTCACGGTTTGGTTGATGCTATTGGTGGCCTTTCTCGAGCTG
ctgttct CT-rich tract
ttgtaaat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgttttaaattcaattagctatttttcatgctttctgttcatcctcttgtaaatccaagttacgtacagttgctgttctgtcactagGTAGACAAGATGGAAGAGGTTGCACAAGGAAGGGTTTGGACTGGTAAGGACGCAGCTTCTCACGGTTTGGTTGATGCTATTGGTGGCCTTTCTCGAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG