Sequence
atgc intronic sequence ATGC exonic sequence...tcctaccaaacaaacttaaatattcagggggttattttgataggttgggatacttatcttgctttaattgattttataagttatttctgttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATCCGATGCATCAAGCCCAATAATCTCCAATCACCTGGATCATATGAGC
Basic information
species | Glycine max |
transcript | GLYMA20G23660.1 |
intron # | 18 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 18
lower sequence: AT3G19960.1 (Arabidopsis thaliana), 3'ss of exon 18
tcctaccaaacaaacttaaatattcagggggttattttgataggttgggatacttatct-tgctttaattgatt-ttataagttatttctg---ttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATCCGATGCATCAAGCCCAATAATCTCCAATCACCTGGATCATATGAGC
||||||| | || | | | | | | | | ||| || | || |||||| ||| | ||| || |||| | ||| | |||||||||||||||||||||| | ||||| |||||||| || || || |||||||| ||||| |||| || || || |||||||
--ttaccaaatt--ttgccatgcttacgctatgaaagaaa-aagccaatatatcatcctctatgatatttgattattaatgaccttacctggattttttttccagAGTCAACTCTTCCAATTGATGCAACGTTTAGGAAACACTACCCCACATTTCATTCGCTGTATCAAGCCAAATAACATCCAGTCTCCCGGGGTGTATGAGC
upper sequence: GLYMA20G23660.1 (Glycine max), 3'ss of exon 18
lower sequence: AT1G50360.1 (Arabidopsis thaliana), 3'ss of exon 18
--------------------------------------------------------------------------------tcctaccaaacaaacttaaatatt-------cagggggttatt--ttgataggttgggatac-ttatcttgctttaattgattttataagttatttctgt-tggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATCCGATGCATCAAGCCCAATAATCTCCAATCACCTGGATCATATGAGC
|| | ||| | || ||| || || | | || | ||| || | ||||| || |||||| | | | | | ||||| ||| | |||||||||||||||||| ||| || ||||| ||||||||||| || ||||| ||||| || ||| | || || | || | |||||||
gttgggtgatttccttaaacacagcttgcttctatttctgctcttaaaatttgttgagggtttactcatcacagctttcatctcatcaacatatgttgtccatttcttgtccaaaaggcttctgcttactttagaaggaaacgtcatcttataatatttgattagtgacgatgccgggatatttttttcagGGTCAACTTTTCCAATTGATGCAACGTCTAGGGAACACTACCCCACATTTTATTCGCTGCATAAAGCCAAACAATGTTCAGTCTGCCGGGTTGTATGAGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgggatacttatcttgctttaattgattttataagttatttctgttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATCCGATGCATCAAGCCCAATAATCTCCAATCACCTGGATCATATGAGC
aattgat putative branch site (score: 4)
tttctgtt putative PPT
tttaattgattttata 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tcctaccaaacaaacttaaatattcagggggttattttgataggttgggatacttatcttgctttaattgattttataagttatttctgttggcacccagGGACAATTGTTCCAATTGATGCAACGTTTAGAGAGTACTACACCACATTTTATCCGATGCATCAAGCCCAATAATCTCCAATCACCTGGATCATATGAGC
- - -ccaaaca
- - - - - - - - - - - - - gggggtt
- - - - - - - - - - - - - - - - - - - - - ggttggg