Sequence
atgc intronic sequence ATGC exonic sequencegtaaaggcttaagttgtctggctttgtgatgcctatcagtgggatttctgttagattgaggtgtttattttatcctgttgctcaaaaattttgacagGGTGTTTTAGCTGGCAAGAGCAGTGGTAATGAGGAGAAATGCTTAGAGGATCAACTAAGGGATGCAAAGGTAGCAGTTGGGAGTACTGAAACAGAATTGA
Basic information
species | Glycine max |
transcript | GLYMA13G27210.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G62410.1 (Arabidopsis thaliana), 3'ss of exon 3
gtaaag--gcttaagttgtctggctttgtgatgcctatcagtgggatttctgttagattgaggtgtttattttatcctgttgctcaaaaattttgacagGGTGTTTTAGCTGGCAAGAGCAGTGGTAATGAGGAGAAATGCTTAGAGGATCAACTAAGGGATGCAAAGGTAGCAGTTGGGAGTACTGAAACAGAATTGA
||| || || || | || | ||||| | | | || || | || | |||| || | | | || | ||| | |||| || ||||||| ||||| ||||| |||| |||||||||||||| ||||||||| ||||||||||| | || ||||| | ||| |||||| ||||
gtagtaccactaaaaaagtatctctattccatgccaaataata-----tccattcgtttta--tgttaat--tggctttatgtcctttgattat--tagGGCGTACTAGCTGGTAAGAGTAGTGGAGATGAAGAGAAATGCTTAGAAGATCAACTACGGGATGCAAAGATTGCTGTTGGAACAGCTGGAACAGAGTTGA
upper sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0022g00230.t01 (Vitis vinifera), 3'ss of exon 3
----gtaaaggcttaagttgtctggctttgtgatgcctatcagtgggattt-------ctgttagattgaggt--gtttattttatcct------gttgct-caaaaattttgacagGGTGTTTTAGCTGGCAAGAGCAGTGGTAATGAGGAGAAATGCTTAGAGGATCAACTAAGGGATGCAAAGGTAGCAGTTGGGAGTACTGAAACAGAATTGA
|||| ||| | ||| | || || | |||| ||| || | | | ||| | | | | | | | || | | | | ||| |||||||| |||| || ||||||||||| | |||||| |||||| | || ||||||||| |||||||| |||||||||||||| | |||||||||||||
gtaaaaaaagttctaatatatctcattctgctattgaacttgatgggctttgttattgctctcatttataggcaagctgagctgaatatagaagagatgttgtacataccatgatagGGTGTTCTAGCCGGTAAGAGCAGTGGAAGTGAGGAAAAATGCCTTGAAGATCAACTAGCTGATGCAAAAGTAGCAGTTGGGAGAGCAGAAACAGAATTGA
upper sequence: GLYMA13G27210.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv16s0022g00060.t01 (Vitis vinifera), 3'ss of exon 3
-----------------gtaaaggcttaagttgtctggctttgtg---atgcctatcagtgggatttctgt-tagattgaggtgtttattttatcctgttgct-caaaaattttgacagGGTGTTTTAGCTGGCAAGAGCAGTGGTAATGAGGAGAAATGCTTAGAGGATCAACTAAGGGATGCAAAGGTAGCAGTTGGGAGTACTGAAACAGAATTGA
||| || | | ||| || || ||| | |||| || | |||| ||| | || | | || | | | | ||| |||||||| ||||||| ||||||||||| | |||||| |||||| | || ||||||||| ||||| || ||||||||||||||| | |||||||||||||
gtaaaaagagtgctaatgtatcacattctgccattgaacttgatgggcattgttattgctctcatttatgggcaagctgagctgt--acttaaaagcgatgttgtacataccatgatagGGTGTTCTAGCTGGTAAGAGCAGTGGAAGTGAGGAAAAATGCCTTGAAGATCAACTAGCTGATGCTAAAGTAGCAGTTGGGAGTGCAGAAACAGAATTGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gatttctgttagattgaggtgtttattttatcctgttgctcaaaaattttgacagGGTGTTTTAGCTGGCAAGAGCAGTGGTAATGAGGAGAAATGCTTAGAGGATCAACTAAGGGATGCAAAGGTAGCAGTTGGGAGTACTGAAACAGAATTGA
tgtttattttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaaggcttaagttgtctggctttgtgatgcctatcagtgggatttctgttagattgaggtgtttattttatcctgttgctcaaaaattttgacagGGTGTTTTAGCTGGCAAGAGCAGTGGTAATGAGGAGAAATGCTTAGAGGATCAACTAAGGGATGCAAAGGTAGCAGTTGGGAGTACTGAAACAGAATTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCAAAG