Sequence
atgc intronic sequence ATGC exonic sequencegtaaatctttcatatctttagcagggtagTGCAAGGCAGTTGTTTCAACGTTTGCAGGGGCCATTGGAGGAGGATACACTGAAGTCTCATTTTGAGAAAATTATAAAGATTGGGCAGAAGCAGCATTAC
Basic information
species | Glycine max |
transcript | GLYMA16G14060.1 |
intron # | 20 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA16G14060.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G24880.1 (Arabidopsis thaliana), 3'ss of exon 16
------------------------------------------------------gtaaatctttc----atatctttag----cagggtagTGCAAGGCAGTTGTTTCAACGTTTGCAGGGGCCATTGGAGGAGGATACACTGAAGTCTCATTTTGAGAAAATTATAAAGATTGGGCAGAAGCAGCATTAC
||||| | || ||| | ||||| ||||| || |||||||||||||| |||| |||||| ||||||| ||||| |||||||||||||||||||| ||| ||||||| |||| |
gtttttctatagctctgagatggtgaacaaagtgtcttctatgcttaaactaatttaaatgccccggatatgtctgtgatattcagGGAAGTGCGAGACAGTTGTTTCAACGACTGCAAGGGCCAATGGAGGAAGATACCCTGAAGTCTCATTTTGAGAAGATTTGTTTGATTGGGAAGAAATTAC-----
upper sequence: GLYMA16G14060.1 (Glycine max), 3'ss of exon 20
lower sequence: AT3G24870.1 (Arabidopsis thaliana), 3'ss of exon 17
--------------------------------------------------------------gtaaatctttcatatctttagcagggtagTGCAAGGCAGTTGTTTCAACGTTTGCAGGGGCCATTGGAGGAGGATACACTGAAGTCTCATTTTGAGAAAATTATAAAGATTGGGCAGAAGCAGCATTAC
| || | || | | | ||||| ||||| || |||||||||||||| |||| |||||| ||||||| ||||| |||||||||||||||||||| ||| ||||||| |||| |
gtttttctatagctctgagatggtgaacaaagtgtcttctatgcttagactaattaaatgccctggatatgtc-tgtgatattcagGGAAGTGCGAGACAGTTGTTTCAACGACTGCAAGGGCCAATGGAGGAAGATACCCTGAAGTCTCATTTTGAGAAGATTTGTTTGATTGGGAAGAAATTAC-----
upper sequence: GLYMA16G14060.1 (Glycine max), 3'ss of exon 20
lower sequence: Vv07s0005g06680.t01 (Vitis vinifera), 3'ss of exon 17
--------------------------------------------------------------------------------------------------------------------gtaaatctttcatatctttagcagggtagTGCAAGGCAGTTGTTTCAACGTTTGCAGGGGCCATTGGAGGAGGATACACTGAAGTCTCATTTTGAGAAAATTATAAAGATTGGGCAGAAGCAGCATTAC
| | |||| ||| ||||| ||||| || ||||||||||||| |||||||||||| || ||||| || || |||||||| ||||||||||| || |||||||||| |||| |
gtaagaattttgattttccctttttgacaagttagaaatagttccttttttatttttttgtattgatgtaaacttgtagactgttgacattgagctaattttagctgtttgaatttatctctgtttctacacttgctcagGGCAGTGCCAGACAGTTGTTTCAACATTTGCAGGGGCCGATGCTAGAGGAAACCCTCAAGTCTCACTTTGAGAAAATCATTTTGATTGGGCAGCAGCATC----- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaaatctttcatatctttagcagggtagTGCAAGGCAGTTGTTTCAACGTTTGCAGGGGCCATTGGAGGAGGATACACTGAAGTCTCATTTTGAGAAAATTATAAAGATTGGGCAGAAGCAGCATTAC
taaatctttcatat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaaatctttcatatctttagcagggtagTGCAAGGCAGTTGTTTCAACGTTTGCAGGGGCCATTGGAGGAGGATACACTGAAGTCTCATTTTGAGAAAATTATAAAGATTGGGCAGAAGCAGCATTAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGC