Sequence
atgc intronic sequence ATGC exonic sequencegtactttttgtgcaagtttgcagctgcattgctaatatcatctaccagAGAAGGAAAAGCTCGTAGCCGGTATGGTACCAGCCATTGAGAAAGCTCGACTATATCGTGGAAAGGGAGGGGAAATCATGCGTGCCGCTGTTTCGAGGCT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ25897 |
intron # | 11 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ25897 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: GLYMA20G24470.1 (Glycine max), 3'ss of exon 11
-------------------------------------------------gtactttttgtgcaagtttgcagctg-cattgctaatatcatc--taccagAGAAGGAAAAGCTCGTAGCCGGTATGGTACCAGCCATTGAGAAAGCTCGACTATATCGTGGAAAGGGAGGGGAAATCATGCGTGCCGCTGTTTCGAGGCT
|| || | ||| || | || |||| | | || | | |||| || | | | || || | | || || ||||||||||| || || ||||||||||||||||| || || |||||||| |||||||| | |
aatggtcatatggttaaacctttctttactgaaggtgattagtttcaaaatatttatgatgctagctgaactttgacatttttgaaattgccattgacagATAAACAGAGAAGTCTTGCTGGCGTTGCTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT
upper sequence: EFJ25897 (Selaginella moellendorffii), 3'ss of exon 11
lower sequence: GLYMA10G42560.1 (Glycine max), 3'ss of exon 10
-------------------------------------------------gtactttttgtgcaagtttg-cagctgcattgctaatatcatc--taccagAGAAGGAAAAGCTCGTAGCCGGTATGGTACCAGCCATTGAGAAAGCTCGACTATATCGTGGAAAGGGAGGGGAAATCATGCGTGCCGCTGTTTCGAGGCT
|| || | ||| || | | | |||| | | || || | |||| || | || | || ||| | || || || ||||||||||| || || ||||||||||||||||| || || |||||||| |||||||| | |
actggtcatatgtttaaatctttctttattgaaggtgattggtttcaaaataattatgatgctagctgaactgtgacatttttgaaattgtcattgacagATAAACAGAAAAGTCTTGCTGGTGTTGTTCCTGCTATTGAGAAAGCACGGCTTTATCGTGGAAAGGGAGGAGAGATAATGCGTGCAGCTGTTTCTCGATT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtactttttgtgcaagtttgcagctgcattgctaatatcatctaccagAGAAGGAAAAGCTCGTAGCCGGTATGGTACCAGCCATTGAGAAAGCTCGACTATATCGTGGAAAGGGAGGGGAAATCATGCGTGCCGCTGTTTCGAGGCT
tgctaat putative branch site (score: 2)
taatatcat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtactttttgtgcaagtttgcagctgcattgctaatatcatctaccagAGAAGGAAAAGCTCGTAGCCGGTATGGTACCAGCCATTGAGAAAGCTCGACTATATCGTGGAAAGGGAGGGGAAATCATGCGTGCCGCTGTTTCGAGGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT