Sequence
atgc intronic sequence ATGC exonic sequencegtactttttatgatttttcaagctgagctttttccttaaataatgttgattccatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
Basic information
species | Glycine max |
transcript | GLYMA11G27410.1 |
intron # | 19 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 19
lower sequence: GRMZM5G824405_T02 (Zea mays), 3'ss of exon 11
----------------------------gtactttttatgatttttcaagctgagctttttccttaaata-atgttgattccatgca------ccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
|| | | | ||| | || | | || || |||| | || | ||||| ||||| | || | ||||| |||||||||||||||||||| ||||| |||||| | || || ||| || |
gtctgtaattgccaaattatattaaatattatatcacaatacattttttgtcaagaatatagtatagttatatgtaaacattttgaaaccttttcagGTCTATGAACCGGTGGAAGAAGGTTCTTACATAAAAATGATTGACATGGTTAGTGGGAAGGGGGGCCAACTAAAG
upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 19
lower sequence: AT1G07110.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------------------------------gtactttttatgatttttca--agctgagctttttccttaaataatg------ttgattccatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
||| | |||| || || | || |||| || | || | ||||||||||||| | || | ||||| || ||||| |||||||||||||||||||||||| | |||||||| ||||||
gtcggtacacaaacctgcactttctaaacgtgtcctaattactttttaaagcttagttaacttttctttgatgcaccatcgtcttggtacttaagacaaatgttgagcttactctttttttttgccagGTTTATGAGCCTGTAGAAGAAGGTTCGTACATCAAAATGATTGATATGGTCAGTGGGAACGGTGGACAGATACAA
upper sequence: GLYMA11G27410.1 (Glycine max), 3'ss of exon 19
lower sequence: Vv06s0004g06920.t01 (Vitis vinifera), 3'ss of exon 13
-------------------------------gtactttttatgatttttcaagctgagctttttccttaaataat--gttgattccatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
||||| | || || | ||| |||| |||||| ||| | || |||||||||||||| |||| | ||||| |||||||| ||||||||||||||||| |||| || | |||||| |||||
gtagtttcctggagcttacttatgatgattggtactactcatatttgtattttgtgaaagatttctgaaaataaacaattgtgctcctgtaccagGTTTATGAGCCAGTGGAAGAAGGCTCTTACATCAAAATGATTGATATGGTTGGTGGCCAAGATGGACAGATACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ttatgatttttcaagctgagctttttccttaaataatgttgattccatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
tgttgat putative branch site (score: 4)
tttttccttaaataat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttttatgatttttcaagctgagctttttccttaaataatgttgattccatgcaccagGTTTATGAGACAGTTAATGAAGGATCTTACATAAAAATGATTGATATGGTCAGTGGGCATGGTGGACAAATACAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA