Sequence
atgc intronic sequence ATGC exonic sequence...tatcatgtcaagctgtgtagtgaactactaattaattttttatgatcctttaactgtattggtgatgttctctttttctttactctgttccatagctcagGTTTGGCATTGTTGAGGATCAGTTGGGACCTTATTTGTGTAGGAAACTGCATTGCATTGGTTGGTCTGTGTTTCAACATTCTGTTGTGCACAACAAT
Basic information
species | Glycine max |
transcript | GLYMA19G36860.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA19G36860.1 (Glycine max), 3'ss of exon 8
lower sequence: AT5G03430.1 (Arabidopsis thaliana), 3'ss of exon 8
---------------------------------------------------------------------------tatcatgtcaagctgtg-tagtgaact---actaattaatttttta---------tgatcctttaactgtat--------tggtgatgttctctttttct-ttactctgttccatagctcagGTTTGGCATTGTTGAGGATCAGTTGGGACCTTATTTGTGTAGGAAACTGCATTGCATTGGTTGGTCTGTGTTTCAACATTCTGTTGTGCACAACAAT
||| || |||||| || ||| ||| | || | | || | || | ||| | ||| || ||| ||||| | || ||||||||||||||||||| ||||| |||||||||||| || |||| | |||||||| ||| || || | |||||||| ||| ||| |||| | | || ||
gtaagtcattaattcttactatcaggctctgtacttgaaagtatttatgttgaaagaacattatggcatgctagatat-atatcaagcaatgacagtagacttaggccaaccatatgttgaaaagggccctgcttggttacttatatactaagtgtgatgaagttcttccgacccatttatctgttccatagctcagGTCTGGCACTGTTGAGGATCAATTAGGACTGTCTTTGTGTAAGAAGTTGACTTCTGTCGGTTGGTCGGTGCAACAAACCACTGTCCTTCGGAATGAT
upper sequence: GLYMA19G36860.1 (Glycine max), 3'ss of exon 8
lower sequence: Vv08s0007g04980.t01 (Vitis vinifera), 3'ss of exon 8
---tatcatgtcaagctgtgtagtgaactactaattaattttttatgatcctttaactgtattggtgatgtt-ctctttttctttactctgttccatagctcagGTTTGGCATTGTTGAGGATCAGTTGGGACCTTATTTGTGTAGGAAACTGCATTGCATTGGTTGGTCTGTGTTTCAACATTCTGTTGTGCACAACAAT
| || | | | | ||| | | || |||| ||| ||| ||| |||| |||| || || | || || ||| ||||||||||||||||||||| |||||||||| | |||||||||| |||||||| || || |||| || |||||||| |||| ||| | |||| | | || ||
ctgttcaattttaccatcatttgtgtgtttcaaaaaaattctttttgagaattt----ttattagtgaaatttctgatatttttctatctattccatagctcagGTTTGGCACTGTTGAGGATGAATTGGGACCTTCATTGTGTAGAAAGCTCCATTCTATAGGTTGGTCAGTGTCACAAACTGCTGTCCTTCGAAATGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcctttaactgtattggtgatgttctctttttctttactctgttccatagctcagGTTTGGCATTGTTGAGGATCAGTTGGGACCTTATTTGTGTAGGAAACTGCATTGCATTGGTTGGTCTGTGTTTCAACATTCTGTTGTGCACAACAAT
ctttaac putative branch site (score: 3)
tgttctctttttcttt putative PPT
tttttcttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tatcatgtcaagctgtgtagtgaactactaattaattttttatgatcctttaactgtattggtgatgttctctttttctttactctgttccatagctcagGTTTGGCATTGTTGAGGATCAGTTGGGACCTTATTTGTGTAGGAAACTGCATTGCATTGGTTGGTCTGTGTTTCAACATTCTGTTGTGCACAACAAT
- tcatgtc
- - - - - -gctgtgt
- - - - - - - - - agtgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - -attggtg