Sequence
atgc intronic sequence ATGC exonic sequencegtttcaacgttgccactttttgacacttgcttggcacagCTGTTAACAAGGATGAGCTTCTTCAAATGGTTCGATACGGCGCGGAGATGGTTTTCAGTTCTAAAGATAGTACCATAACCGATGAAGATATAGATCGTAT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ15818 |
intron # | 12 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 12
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 13
---------------------------------------------gtttcaacgttgccactttttgacacttgcttg---gcacagCTGTTAACAAGGATGAGCTTCTTCAAATGGTTCGATACGGCGCGGAGATGGTTTTCAGTTCTAAAGATAGTACCATAACCGATGAAGATATAGATCGTAT
|| | | | | | | || | |||| | |||| || || || ||||| | |||||||||||| ||| || || || |||||||||||||| || |||||||| || || ||||||||||| ||| | ||
gtaggaattcaatgaataacttttcttgtttctttgctgaaagttgtgtggattgtctaatatggttccattggcttttatgtgcagCGGTAAATAAAGATGAATTGCTTCAAATGGTTAGATTTGGGGCTGAAATGGTTTTCAGTTCCAAGGATAGTACAATTACAGATGAAGATATTGATAGAAT
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 12
lower sequence: AT3G06400.1 (Arabidopsis thaliana), 3'ss of exon 13
----------------------------------gtttcaacgttgccactttttgacacttgcttggc---acagCTGTTAACAAGGATGAGCTTCTTCAAATGGTTCGATACGGCGCGGAGATGGTTTTCAGTTCTAAAGATAGTACCATAACCGATGAAGATATAGATCGTAT
| |||| | || || || | | ||| | ||||||| || ||||||||| | ||||||||||| |||| || || |||||||| ||||||||||||||||| || || || || || ||||| ||| | ||
gtaagtgcgttatacagtgattgctttatgcattggttcatctctgacagaattggtatttatcttaactatgcagCTGTCAATAAGGATGAGTTGCTTCAAATGGTAAGATATGGTGCTGAGATGGTGTTCAGTTCTAAAGATAGCACAATCACAGACGAGGATATTGATAGAAT
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 12
lower sequence: AT5G18620.1 (Arabidopsis thaliana), 3'ss of exon 13
--------------------------------------------gtttca-acgt-tgccactttttgacacttgcttggcacagCTGTTAACAAGGATGAGCTTCTTCAAATGGTTCGATACGGCGCGGAGATGGTTTTCAGTTCTAAAGATAGTACCATAACCGATGAAGATATAGATCGTAT
|| || | | | | ||| | |||||| |||||||||| ||||||||| | ||||||||||| |||| || || || ||||| || |||||||||||||| || || || ||||| ||||| || | ||
gtaagtgcttgtgtactgaggctgttagatgtattggattttctcttacatatatatactgatttcttttctttgctt--tccagCTGTTAATAAGGATGAGTTGCTTCAAATGGTGAGATATGGTGCTGAAATGGTGTTTAGTTCTAAAGATAGCACAATTACGGATGAGGATATTGACAGAAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcaacgttgccactttttgacacttgcttggcacagCTGTTAACAAGGATGAGCTTCTTCAAATGGTTCGATACGGCGCGGAGATGGTTTTCAGTTCTAAAGATAGTACCATAACCGATGAAGATATAGATCGTAT
ttttgac putative branch site (score: 3)
cttgctt CT-rich tract
acttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtttcaacgttgccactttttgacacttgcttggcacagCTGTTAACAAGGATGAGCTTCTTCAAATGGTTCGATACGGCGCGGAGATGGTTTTCAGTTCTAAAGATAGTACCATAACCGATGAAGATATAGATCGTAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA