Sequence
atgc intronic sequence ATGC exonic sequence...tacagggaggtggctagctgatccatctgtatatgaattagaccatttaattcttcaacttactcttagtcttacattttcaattttgtctgattttcagATCAGGCGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGTAGAAACCTTTGAGAAGCCATTCCTTGAG
Basic information
| species | Glycine max |
| transcript | GLYMA08G10180.1 |
| intron # | 3 |
| splice site | 3' |
| intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os03g57290.1 (Oryza sativa), 3'ss of exon 3
tacagggaggtggctagctgatccatctgtatatgaattagaccatttaattcttcaacttactcttagtcttacattt--tcaattttgtctgattt-tcagATCAGGCGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGTAGAAACCTTTGAGAAGCCATTCCTTGAG
|| | | | | | ||| | | || || ||| | | | || | || | || | || | ||| || |||| || ||| || | || || || | || | ||||||| ||||||||||||||||||| ||||| ||| || | ||||| ||||| || || |||
---gggtccattttaaattattaaaattgtggacttgaagggtcaatttattttatattcttctatgtaactgattattcattaaccatctcttccttatcagGCTTGGTGAAGCAATAGACAGGACATTACTTAGTCATCTTCTGAAGATGTTTACTGCTCTTGGAATGTATTCTGAGAGTTTTGAAAAGCCCTTTCTGGAG
upper sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 3
lower sequence: AT5G46210.1 (Arabidopsis thaliana), 3'ss of exon 3
----tacagggaggtggctagctgatccatct-gtatatgaattagaccatttaattcttcaacttactcttagtcttacattttcaattttgtctgattttcagATCAGGCGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGTAGAAACCTTTGAGAAGCCATTCCTTGAG
| || || || | || | | ||| ||| || || | | | | | || | ||| | | || ||| | | ||| | || ||| | || |||| ||||| |||| ||||||||||||||||||||||| |||||||||||| | |||| ||||||||| || ||||||||
aaatttcaaggcaaatcaggactagtgtatgtcatttatatattggataatgttttcatctgaat--ctgctgaactttcttgcatgatattg---gtcctgcagGTTAGCAGAAGCTGTTAATAGGACTCTACTAAGCCATCTTTTGAAGATGTTTACTGCACTGGGAATTTATATGGAAAGCTTTGAGAAACCTTTCCTTGAA
upper sequence: GLYMA08G10180.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv10s0003g03710.t01 (Vitis vinifera), 3'ss of exon 3
tacagggaggtggctagctgatccatctgtatatgaattagaccatt--taattcttcaacttactcttagtcttacattttcaa-----ttttgtctgattttcagATCAGGCGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGTAGAAACCTTTGAGAAGCCATTCCTTGAG
| || | | |||||||| ||| ||| | | || ||| | ||| | ||| | | || | | | | | | | || | ||||||| ||| ||| |||| ||||| ||||| || ||||||||||||||||||||||||||||| ||||||||| | |||| ||||||||||||||||| |||
------aggatgtttggatgatccat-tgttcttgactagcttctttgttaaatgttctatttatttaacattttgtaatgtagagcattctatttttggtcttcagATTAGGTGAAGCAGTAGATAGGACTCTCCTTAATCATCTTTTGAAGATGTTTACTGCTCTAGGAATTTATTTGGAAAGTTTTGAGAAGCCATTCCTCGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttaattcttcaacttactcttagtcttacattttcaattttgtctgattttcagATCAGGCGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGTAGAAACCTTTGAGAAGCCATTCCTTGAG
ttttgtct CT-rich tract
ttacattttcaatttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacagggaggtggctagctgatccatctgtatatgaattagaccatttaattcttcaacttactcttagtcttacattttcaattttgtctgattttcagATCAGGCGAATCAGTGGATAGAACTCTTCTAAATCATCTTTTGAAGATGTTTACTGCTCTGGGAATTTATGTAGAAACCTTTGAGAAGCCATTCCTTGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC
- - -ggaggtg
- - - - - - - - -ctgatcc
- - - - - - - - - - - - - - - - - - - - - ccattta
