Sequence
atgc intronic sequence ATGC exonic sequence...acctgattgaatagaaactaaactctgtattctttttccaatgtttattctgttttattccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCGGGAGTGGGAAATAATTGAAACAAGAAAAGCGTTATCTAGGACAGGACCAGTGAATGCATACAATCCAAAA
Basic information
species | Glycine max |
transcript | GLYMA20G32090.1 |
intron # | 1 |
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 1
lower sequence: AT4G14145.1 (Arabidopsis thaliana), 3'ss of exon 2
----------acctgattgaatagaaactaaactctgtattctttttccaatgtttattctgttttattccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCGGGAGTGGGAAATAATTGAAACAAGAAAAGCGTTATCTAGGACAGGACCAGTGAATGCATACAATCCAAAA
| |||||| | | || || ||| || | | | | | || | || ||| | |||| | | || || | |||| ||||||||||||||||| |||||||| | || ||||| || || ||||||||||| || | || || |||||||| || |||| || || || |||
gtcagttctttcttgattggaaaacctctgaa-tctataaatgtctggggaaatgtcaatgattctgtttagaattcacc---acatatggtttatttg-gttagttcagTAAGGATATTGCAAAGGTAAAAGATGACCAAGAATGGGAGATTATAGAAACAAGAAAGGCACTTTCGAGAACAGGACCTGTCGATGCCTATAAACCTAAA
upper sequence: GLYMA20G32090.1 (Glycine max), 3'ss of exon 1
lower sequence: Vv13s0019g04430.t01 (Vitis vinifera), 3'ss of exon 2
acctgattgaatagaaactaaactctgtattctttttccaatgtttattctgtttta--ttccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCGGGAGTGGGAAATAATTGAAACAAGAAAAGCGTTATCTAGGACAGGACCAGTGAATGCATACAATCCAAAA
| || | | || | | |||| || ||||| | ||| || |||| |||| |||||| || ||| || | | ||||||||||||||||| ||||||||||||||||| || ||||| || | |||| ||| ||||| | || ||||||||||| || ||| || || ||||||
tattatctggacctttaaagaatgttacttgctttactcactgtttggtacctttagcttttcatcatcat-ctaaaagatcatgggtctttcta-gctcagCAAGGATATTGGGAAGGTGAAAGATGATCGTGAATGGGAGATCACTGAAGCAAAGAAAGCACTGTCCAGGACAGGACCGGTTGGTGCGTATAAGCCAAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tattctgttttattccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCGGGAGTGGGAAATAATTGAAACAAGAAAAGCGTTATCTAGGACAGGACCAGTGAATGCATACAATCCAAAA
ttctaaa putative branch site (score: 2)
tctgctc putative PPT
tcattctaaaatataa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
acctgattgaatagaaactaaactctgtattctttttccaatgtttattctgttttattccatcctcattctaaaatataatgcaactgtgtctgctcagCAAGGATATTGCAAAGGTGAAAGATGATCGGGAGTGGGAAATAATTGAAACAAGAAAAGCGTTATCTAGGACAGGACCAGTGAATGCATACAATCCAAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
-cctgatt
- - - - -aatagaaa
- - - - - - - - - - - ctctgta
- - - - - - - - - - - - - - - - - - -ccaatgt
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -aatgcaa