Sequence
atgc intronic sequence ATGC exonic sequence...aagagttgttaggtcttcttttctctgatttgttgattgttatattatattacataactgaggcatctgaaaaattaaaatttgtctactcaaattgtagGAATTTGCGGTTAGAAATGGCATGGGATGTGGATCAACCATAGGCCCAATACTTGCTTCTGGAGTTGGCATCCGAACGGTTGACTGTGGAATTGCTCAAC
Basic information
species | Glycine max |
transcript | GLYMA10G34800.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA10G34800.1 (Glycine max), 3'ss of exon 7
lower sequence: LOC_Os01g73680.1 (Oryza sativa), 3'ss of exon 7
----aagagttgt-taggtcttcttttctctgatttgttgattgttatattatattacataactgaggcatctgaaaaattaaaatttgtctactcaaattgtagGAATTTGCGGTTAGAAATGGCATGGGATGTGGATCAACCATAGGCCCAATACTTGCTTCTGGAGTTGGCATCCGAACGGTTGACTGTGGAATTGCTCAAC
| | || | ||| | || | || | ||||| | | ||| | ||||| | |||| | ||| |||| | | | || | || |||||||||| || || |||| ||||| ||||| ||||| || ||||| |||||||||||||| |||||||| || || ||||||||||| ||| |||| |
cagcatgtgtcatctagaagtctttacttttgtaaagctgatttgtct-ttagaatacatgaatgag---tttgaggaattgca-ctgatgtatatagcttatagGAATTTGTTGTAAGGAATGATATGGGCTGTGGTTCAACTATTGGCCCCATACTTGCTTCTGGTGTTGGCATACGGACTGTTGACTGTGGTATTCCTCAGC
upper sequence: GLYMA10G34800.1 (Glycine max), 3'ss of exon 7
lower sequence: Vv13s0106g00700.t01 (Vitis vinifera), 3'ss of exon 8
aagagttgttaggtcttcttttctctgatttgttgattgttatattatattacataactgaggcatctgaaaaattaaaatttgtctactcaaat---tgtagGAATTTGCGGTTAGAAATGGCATGGGATGTGGATCAACCATAGGCCCAATACTTGCTTCTGGAGTTGGCATCCGAACGGTTGACTGTGGAATTGCTCAAC
||| | ||| | || | || || | | | || | | | | || |||| || | |||| | | | | ||| | |||||||||||| || ||||| | |||||||||||||| |||||||| || ||||| |||||||| ||||||||||| || ||||| ||||| |||||||| |
-agaatatatagaggtagattaca-tgtttcactt-tcttcatttcaagatttaaaattgagacaccagaaactgcatctacttaccattcatttctctgtagGAATTTGTTGTGAGAAACGATATGGGATGTGGATCTACCATAGGTCCCATACTAGCTTCTGGGGTTGGCATCCGCACTGTTGATTGTGGTATTGCTCAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tatattacataactgaggcatctgaaaaattaaaatttgtctactcaaattgtagGAATTTGCGGTTAGAAATGGCATGGGATGTGGATCAACCATAGGCCCAATACTTGCTTCTGGAGTTGGCATCCGAACGGTTGACTGTGGAATTGCTCAAC
acataac putative branch site (score: 3)
tctactc putative PPT
aaaaattaaaatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aagagttgttaggtcttcttttctctgatttgttgattgttatattatattacataactgaggcatctgaaaaattaaaatttgtctactcaaattgtagGAATTTGCGGTTAGAAATGGCATGGGATGTGGATCAACCATAGGCCCAATACTTGCTTCTGGAGTTGGCATCCGAACGGTTGACTGTGGAATTGCTCAAC
- - - - - - - - - - - - -tgatttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - gcatctg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aaattaaa