Sequence
atgc intronic sequence ATGC exonic sequence...tgaactgactgagattgcattaatccatatccaattgtcagtctgcattttgctaaagtcagattcatgaactgtcttgtgttgacatcgcttcatgcagGAAAGAGGAGAGAATGTACCACTAGAGGACTCTTTTGAAGTGGCACGGAAAGTGAAGGAAATGTATTGCTACACCTGCTCTGACATTGTGAAG
Basic information
species | Glycine max |
transcript | GLYMA08G13810.1 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 3
lower sequence: LOC_Os02g38340.1 (Oryza sativa), 3'ss of exon 4
------------tgaactgactgagattgcattaatccatatccaattgtcagtctgcattttgctaaagtcagattcatgaactgtcttgtgttgacatcgcttcatgcagGAAAGAGGAGAGAATGTACCACTAGAGGACTCTTTTGAAGTGGCACGGAAAGTGAAGGAAATGTATTGCTACACCTGCTCTGACATTGTGAAG
| | | ||||||| || | |||| | | ||||||| || | | | | || | || | | | ||| ||||||||||||| ||| | | |||| ||| || |||||||| |||||| ||| |||||| |||||||| ||||| || || || || |||||||||
aagtttacctcataattttcttgagattttcatattttatata-----gcgaatctgcataatggcagtgc---acttataagtcac--tgagccaa--ttagttcttgcagGAAAGAGGTGAGCACATTCCACCAGAAGAATCTTTTGATGTGGCAAGGAGAGTGAAAGAAATGTACTGCTATACATGTTCAGATATTGTGAAG
upper sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 3
lower sequence: AT1G13180.1 (Arabidopsis thaliana), 3'ss of exon 3
tgaactgactgagat--tgcattaatccatatccaattgtcagt--ctgcattttgctaaagt--cagattcatgaactgtcttgtgttgacatcgcttcatgcagGAAAGAGGAGAGAATGTACCACTAGAGGACTCTTTTGAAGTGGCACGGAAAGTGAAGGAAATGTATTGCTACACCTGCTCTGACATTGTGAAG
|| | |||| || | || | | | | ||| || ||| || | |||||| | ||| || | | | || || |||||||||| |||||| |||||| ||| || || || || || || || ||||||||||||||||| |||||||| || |||||||| || |||
---tttgttttagatgttgtgctcatatgcttagagagggtgtttactggtttagattaatgtattaacttcatgtaacttctcgtttcaat---gtttactgtagGAAAGAGGTGAGAATATACCACCAGAAGATTCATTCGATGTAGCCCGTAAAGTGAAGGAAATGTACTGCTACACTTGTTCTGACATCGTAAAG
upper sequence: GLYMA08G13810.1 (Glycine max), 3'ss of exon 3
lower sequence: Vv01s0137g00280.t01 (Vitis vinifera), 3'ss of exon 3
tgaactgactg-agattgcattaatccatatccaattgtcagtctgcattt-tgctaaagtcagattcatgaactgtcttgtgttgacatc-gcttcatgcagGAAAGAGGAGAGAATGTACCACTAGAGGACTCTTTTGAAGTGGCACGGAAAGTGAAGGAAATGTATTGCTACACCTGCTCTGACATTGTGAAG
| | || | || | || || |||| | | || || | || | | | || ||| | | |||| || | | || |||||||||||||| |||| || | || |||||||||||||| || || ||||||||||||||||||||||| || | ||||| || || |||
---attatctatatatagtatctatacatactaggataaaaatcacgatctgtgaaatgattaccttaatggtttcctgaattttgatatttgtgttgtgtagGAAAGAGGAGAGCATGTGCCGCCTGAAGACTCTTTTGAAGTAGCTCGAAAAGTGAAGGAAATGTATTGCTATACATCTTCTGATATCGTCAAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cattttgctaaagtcagattcatgaactgtcttgtgttgacatcgcttcatgcagGAAAGAGGAGAGAATGTACCACTAGAGGACTCTTTTGAAGTGGCACGGAAAGTGAAGGAAATGTATTGCTACACCTGCTCTGACATTGTGAAG
tcgcttc CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgaactgactgagattgcattaatccatatccaattgtcagtctgcattttgctaaagtcagattcatgaactgtcttgtgttgacatcgcttcatgcagGAAAGAGGAGAGAATGTACCACTAGAGGACTCTTTTGAAGTGGCACGGAAAGTGAAGGAAATGTATTGCTACACCTGCTCTGACATTGTGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA
- - ctgactg
- - - - - - - -tgcatta
- - - - - - - - - - - - - - - - - - - -agtctgc
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -catgaac
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgtcttg
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgac