Sequence
atgc intronic sequence ATGC exonic sequencegtaatataacgtaaagatcttataattaattagttcaataaaatacttgcttaaccatctgtacaaaactatgattatgacaatgcctgcttgatttcactatctgaaccgagttttactttgcagGGTACCGGTCTGGTTGTTCATGATGCTGGTGCTTATTGTATGAGTATGGCATCAACTTACAATCTAAAGATGCGGCCTCCTGAGTATTGG
Basic information
species | Glycine max |
transcript | GLYMA13G20390.1 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GLYMA13G20390.1 (Glycine max), 3'ss of exon 7
lower sequence: AT5G11880.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatataacgtaaagatcttataattaattagttcaataaaatacttgcttaaccatctgtacaaaactatgattatgacaatgcctgcttgatttcactatctgaaccgagttttactttgcagGGTACCGGTCTGGTTGTTCATGATGCTGGTGCTTATTGTATGAGTATGGCATCAACTTACAATCTAAAGATGCGGCCTCCTGAGTATTGG
|| ||| | | || || | | || | || || |||| || | ||| || ||||| | |||||||| |||||||| |||||||| || |||||||||||||| || ||||||||||| |||||||| || || || || |||
-------------------------------------gtattataaggatctgattat--gtttggcagctcaagtaatatggaatctaattagtttc-----ttgta--------tacgttacagGGAGCTGGTCTGGTGGTTCATGACGCTGGTGCATACTGTATGAGTATGGCTTCCACTTACAATCTCAAGATGCGTCCCCCGGAATACTGG
upper sequence: GLYMA13G20390.1 (Glycine max), 3'ss of exon 7
lower sequence: AT3G14390.1 (Arabidopsis thaliana), 3'ss of exon 6
gtaatataacgtaaagatcttataattaattagttcaataaaatacttgcttaaccatctgtacaaaactatgattatgac--aatgcctgcttgatttc--actatctgaaccgagttt-tactttgcagGGTACCGGTCTGGTTGTTCATGATGCTGGTGCTTATTGTATGAGTATGGCATCAACTTACAATCTAAAGATGCGGCCTCCTGAGTATTGG
| || | || ||||||| || | || | || | | | ||| | | | | | || ||||| | |||||||| |||||||| |||||||| || |||||||| ||||| || ||||||||||| |||||||| ||||| || || |||
--------------------------------------------------------gtatg-ataaggatatgattctgtttggaagctcaggtaatgtggaatcttatgagtttattgtattcattacagGGAGCTGGTCTGGTGGTTCATGACGCTGGTGCATACTGTATGAGCATGGCTTCCACTTACAATCTCAAGATGCGTCCTCCGGAATACTGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgattatgacaatgcctgcttgatttcactatctgaaccgagttttactttgcagGGTACCGGTCTGGTTGTTCATGATGCTGGTGCTTATTGTATGAGTATGGCATCAACTTACAATCTAAAGATGCGGCCTCCTGAGTATTGG
gcttgat putative branch site (score: 5)
ttttacttt putative PPT
ttttacttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatataacgtaaagatcttataattaattagttcaataaaatacttgcttaaccatctgtacaaaactatgattatgacaatgcctgcttgatttcactatctgaaccgagttttactttgcagGGTACCGGTCTGGTTGTTCATGATGCTGGTGCTTATTGTATGAGTATGGCATCAACTTACAATCTAAAGATGCGGCCTCCTGAGTATTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG