Sequence
atgc intronic sequence ATGC exonic sequencegtctgttttccctttcattcacaatataatgtggtctggattatccatggtttaatttctatttgttgtttgcatagGCTTTGCAACAAAAGGTGGACATTAACAACTATGAGTACAAGAAAATTCCTAAACCAAAAGAGGGCAATCGAGACTAG
Basic information
species | Glycine max |
transcript | GLYMA20G32090.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G32090.1 (Glycine max), 3'ss of exon 2
lower sequence: LOC_Os03g17910.1 (Oryza sativa), 3'ss of exon 3
-----------------gtctgttttccctttcattcacaatataatgtggtctgg-attatccatggtttaatttct--atttgttgtttgcat--agGCTTTGCAACAAAAGGTGGACATTAACAACTATGAGTACAAGAAAATTCCTAAACCAAAAGAGGG-CAATCGAGACTAG---------------------
| || ||| | | |||| | || | || | ||||| | | | | || || |||||||||| |||||||||||||| ||||||||||| ||||||| ||||| | ||| || ||| ||| || |
gtgattattgtgttgatatgtgaaaagtggccgatttgatgtgtggtgtgccatcttatagtgattgatctaattcatgaactgcatccctgtatttagGCTTTGCAGCAAAAGGTGGACATAAACAACTATGACTACAAGAGGATTCCCAGACCCAATGAGAAATAATTGAAGTAAAGCATCATTTACCACCCTGAGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aatataatgtggtctggattatccatggtttaatttctatttgttgtttgcatagGCTTTGCAACAAAAGGTGGACATTAACAACTATGAGTACAAGAAAATTCCTAAACCAAAAGAGGGCAATCGAGACTAG
gtttaat putative branch site (score: 4)
tttaatttctatttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctgttttccctttcattcacaatataatgtggtctggattatccatggtttaatttctatttgttgtttgcatagGCTTTGCAACAAAAGGTGGACATTAACAACTATGAGTACAAGAAAATTCCTAAACCAAAAGAGGGCAATCGAGACTAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAGG