Sequence
atgc intronic sequence ATGC exonic sequence...cattgttacagctttgtcattgatgcagatgaagcaagatttttgtggttactctatgttgtattgcaattaaatcacaaataaattatatatgttacagATGTCAAATAGCAGTTCATCAAGAATGCTATGGAGCAAGAAATGTCCGAGATTTTACATCTTGGGTTTGTAAGGCTTGTGAAACACCTGACATCAAGCGG
Basic information
species | Glycine max |
transcript | GLYMA06G13330.1 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 12
lower sequence: AT4G27910.1 (Arabidopsis thaliana), 3'ss of exon 11
cattgttacagctttgtca-ttgatgcagatgaagcaagatttttgtggttactctatgttgtattgcaattaaatcacaaataaattatatatgtta--cagATGTCAAATAGCAGTTCATCAAGAATGCTATGGAGCAAGAAATGTCCGAGATTTTACATCTTGGGTTTGTAAGGCTTGTGAAACACCTGACATCAAGCGG
||||| | ||| || ||| || ||| | | | | | | | || |||| | | | | | || || | | |||||| ||||||||||| ||||| ||||||||||| || ||| |||| || ||||| || || ||||| ||||| || || || | ||| || |||||||||
--ttgttttctgtggatcactttatggcgacttgtgaagtatcatccattatcattgtttcataa-gcaacttagataaatgtttctttcattttcttgtcagATGCCAAATAGCAGTGCATCAGGAATGCTATGGCGCTAGACATGTTCGTGATTTCACCTCATGGGTCTGTAAAGCATGCGAGAGACCAGATATCAAGCGG
upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 12
lower sequence: AT5G53430.1 (Arabidopsis thaliana), 3'ss of exon 11
cattgttacagctttgtcattgatgcagatgaagcaagatttttgtggttactctatgttgtattgcaattaaatcacaaataaattatatatgtta----cagATGTCAAATAGCAGTTCATCAAGAATGCTATGGAGCAAGAAATGTCCGAGATTTTACATCTTGGGTTTGTAAGGCTTGTGAAACACCTGACATCAAGCGG
||| || | | | | | || || || | | || | | || || | | ||| ||| || | | | | || |||||||||||||||||||||||| ||||||||||| | ||||| || || || || ||||| ||||| || || || || || |||||||| ||||| ||
--ttgctattattattcagaaaaaaaaaacgagaaaatatctgacttgtgaagc-atatt-tggtatcattgaattttaagtcttctgttccttttctcctcagATGTCAAATAGCAGTTCATCAGGAATGCTATGGGACGAGAAACGTTCGTGACTTCACATCATGGGTCTGCAAAGCCTGCGAGACACCTGAGATCAAACGA
upper sequence: GLYMA06G13330.1 (Glycine max), 3'ss of exon 12
lower sequence: Vv16s0098g00350.t01 (Vitis vinifera), 3'ss of exon 12
cattgttacagctttgtcattgatgcagatgaagcaagatttttgtggttactctatgttgtattgca---attaaatcacaaataaatt----atatatgttacagATGTCAAATAGCAGTTCATCAAGAATGCTATGGAGCAAGAAATGTCCGAGATTTTACATCTTGGGTTTGTAAGGCTTGTGAAACACCTGACATCAAGCGG
| || || | ||| ||| || || ||| || ||||| | | | | | |||| || || | || || | | | ||||||||||||||| || |||||||| || ||||| ||||||||||| || ||||| || || |||||||| | || |||||||||||||| | |||||
----accaaagaattttttttgttgc--ctggagattttactttttgagtactcca-ataacactaaatgaattatattacttttttttttttaatttctataccagATGTCAAATAGCCGTCCATCAAGAGTGTTATGGGGCAAGAAATGTTCGGGATTTCACTTCATGGGTTTGCAGAGCATGTGAAACACCTGATGTTGAGCGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tggttactctatgttgtattgcaattaaatcacaaataaattatatatgttacagATGTCAAATAGCAGTTCATCAAGAATGCTATGGAGCAAGAAATGTCCGAGATTTTACATCTTGGGTTTGTAAGGCTTGTGAAACACCTGACATCAAGCGG
tattgcaattaaatca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cattgttacagctttgtcattgatgcagatgaagcaagatttttgtggttactctatgttgtattgcaattaaatcacaaataaattatatatgttacagATGTCAAATAGCAGTTCATCAAGAATGCTATGGAGCAAGAAATGTCCGAGATTTTACATCTTGGGTTTGTAAGGCTTGTGAAACACCTGACATCAAGCGG
- - - - - - - - - - tgatgca
- - - - - - - - - - - - - - - - - - - - ttttgtg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tattgca
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaataaa