Sequence
atgc intronic sequence ATGC exonic sequencegtaataaagttgtaacacctttgtttttgttttgttttgtttctctcagcatgcacatgtgaggttggttgaaattgtaatttacttgggtctttcatgggacatgtcacagCTTTGCTGACCTTCAGAAGCCGCAAGTTGAACTTGATGGCAAGGCTTGTGCTGCTGTTGGACAAAACAGCCTTATGGCTCTTTATGATGTTTTGTTTAGT
Basic information
species | Glycine max |
transcript | GLYMA18G03830.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA18G03830.1 (Glycine max), 3'ss of exon 3
lower sequence: AT3G55610.2 (Arabidopsis thaliana), 3'ss of exon 3
gtaataaagttgtaacacctttgtttttgttttgttttgtttctctcagcatgcacatgtgaggttggttgaaattgtaatttacttgggtctttcatgggacatgtcacagCTTTGCTGACCTTCAGAAGCCGCAAGTTGAACTTGATGGCAAGGCTTGTGCTGCTGTTGGACAAAACAGCCTTATGGCTCTTTATGATGTTTTGTTTAGT
|| ||| ||| |||| |||| ||| |||||||| | || |||| | ||| | || ||| || ||||| | ||||| || | |||||||| ||| | ||||||||||| ||||||||||||| |||||| || | ||| || |||||| ||||| | |||||
gttatattattggaacaa----gtttaaagttttttttgttttta-----gtgtttctgtgctg---------atttttgttctcttcggattttca--------------gTTTTGCAGATTTACAGAAGCCACAAATGGAACTTGATGGGAAGGCTTGTGCTGGTGTTGGGCAGAGCAGTCTCATGGCTTACTATGAGACTATGTTTGAC
upper sequence: GLYMA18G03830.1 (Glycine max), 3'ss of exon 3
lower sequence: AT2G39800.2 (Arabidopsis thaliana), 3'ss of exon 2
gtaataaagttgtaacacctttgtttttgttttgttttgtttctctcagcatgcacatgtgaggttggttgaaattgtaatttacttgggtctttcatgggacatgtcacagCTTTGCTGACCTTCAGAAGCCGCAAGTTGAACTTGATGGCAAGGCTTGTGCTGCTGTTGGACAAAACAGCCTTATGGCTCTTTATGATGTTTTGTTTAGT
| || ||| | ||||| ||| | ||| || || || | | | | | || | |||| ||| | | ||| | | | ||||||||| || ||||||||||| || |||||||||||| ||||||||||||| ||||||||||| ||| ||||||||| ||||| | |||||
-------aacagtgaca--tgtgtttatgtgt-gttatgatttaaaagttttgtttttttttgct--gatggatttgttttttttctttttttttgttaatggcttttgcagCTTTGCGGATCTTCAGAAGCCTCAGACTGAACTTGATGGGAAGGCTTGTGCTGGTGTTGGACAAAGCAGTCTTATGGCTTACTATGAGACTATGTTTGAC
upper sequence: GLYMA18G03830.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv13s0019g02360.t01 (Vitis vinifera), 3'ss of exon 3
gtaataaagttgtaacacctttgtttttgttttgttttgtttctctcagcatgcacatgtgaggttggttgaaattgtaatttacttgggtctttcatgg----gacatgtcacagCTTTGCTGACCTTCAGAAGCCGCAAGTTGAACTTGATGGCAAGGCTTGTGCTGCTGTTGGACAAAACAGCCTTATGGCTCTTTATGATGTTTTGTTTAGT
| || || || || | |||||| | | || | | | | || |||| |||| | | ||| | | || | || |||||||||||| || || || || |||| ||| |||||||| ||||| ||||| |||||||||||||| | |||||||||||| ||||| || |||||
--------------aaacaatt--ttcgacctttatatgtttcaattaatgtgaaagtttctattctcatgttattgagatttgactacatatttggttgtgctgatgtctcgcagCTTTGCTGATCTCCAAAAACCACAAGCTGAGCTTGATGGTAAGGCGTGTGCAGCTGTTGGACAAAATAACCTTATGGCTCTCTATGACACATTATTTAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgtgaggttggttgaaattgtaatttacttgggtctttcatgggacatgtcacagCTTTGCTGACCTTCAGAAGCCGCAAGTTGAACTTGATGGCAAGGCTTGTGCTGCTGTTGGACAAAACAGCCTTATGGCTCTTTATGATGTTTTGTTTAGT
ttgaaattgtaattta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaataaagttgtaacacctttgtttttgttttgttttgtttctctcagcatgcacatgtgaggttggttgaaattgtaatttacttgggtctttcatgggacatgtcacagCTTTGCTGACCTTCAGAAGCCGCAAGTTGAACTTGATGGCAAGGCTTGTGCTGCTGTTGGACAAAACAGCCTTATGGCTCTTTATGATGTTTTGTTTAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT