Sequence
atgc intronic sequence ATGC exonic sequencegtaagtgtttttttgtctcgtttgtagataaaccaatgctggctccattctcgcagATTCAAGCTGCTTTTCGAACTGATGAAATAAGACGTGCGCCCCCAACCCCGCAGGACGAGATGCGTGCCGGGATGAGCTACTTTCACGAGACAATCTGGA
Basic information
species | Selaginella moellendorffii |
transcript | EFJ13502 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ13502 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S83_144V6.1 (Physcomitrella patens), 3'ss of exon 4
------------------gtaagtgttt-ttttgtctcgtttgtagataaaccaatgc--tggctccattctcg--------------cagATTCAAGCTGCTTTTCGAACTGATGAAATAAGACGTGCGCCCCCAACCCCGCAGGACGAGATGCGTGCCGGGATGAGCTACTTTCACGAGACAATCTGGA
| | | || ||||| | | | || | | | | || || | || || | ||||||||||| || ||||| ||||| || || || || | | || || || ||||| |||||||||||||| ||||||||||| ||||| ||||| ||||
gtgcgctgttcaaagcctgaatggattggttttgcattgctagtgtgtgagctgaagcggtgatttcactcacagtggctcccttgcacagATTCAAGCCGCCTTTCGCACTGACGAGATCAGGCGATCCCAACCCACACCCCAGGATGAGATGCGTGCCGGCATGAGCTACTTCCACGAAACAATATGGA
upper sequence: EFJ13502 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S169_156V6.1 (Physcomitrella patens), 3'ss of exon 3
--------------------------------------------------------------------------------------------------------gtaagtgtttttttgtctcgtttgtagataaaccaatgctggctccattctcgcagATTCAAGCTGCTTTTCGAACTGATGAAATAAGACGTGCGCCCCCAACCCCGCAGGACGAGATGCGTGCCGGGATGAGCTACTTTCACGAGACAATCTGGA
| | |||| | | || |||| ||| | | | | || | |||||||||||||| ||||| ||||| || || |||| | | ||||| || ||||| ||||||||||| || ||||| ||||| |||||||| |||||||
gttcgatgttgtctcacgactcggcgaaatactttcctgaaatttttgcccatccttctgaggcattgttgttcattaaatcggcggattaatggttgtggtggtttaaaattttagtaccacgattgttaata--ttattaccgactttgt----acagATTCAAGCTGCATTTCGTACTGACGAGATCCGACGGTCACAGCCAACACCCCAGGATGAGATGCGTGCAGGCATGAGTTACTTCCACGAGACTATCTGGA
upper sequence: EFJ13502 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: PP1S43_131V6.1 (Physcomitrella patens), 3'ss of exon 3
----------------------------------gtaagtgtttttttgtctcgttt--------gtagataaaccaatgctggctccattct--cgcagATTCAAGCTGCTTTTCGAACTGATGAAATAAGACGTGCGCCCCCAACCCCGCAGGACGAGATGCGTGCCGGGATGAGCTACTTTCACGAGACAATCTGGA
| || | || | | || || || | ||| | | | | | |||||||||||| || || |||||||||| || | || | || ||||| || || |||||||||||||| || |||||||| ||||| ||||| |||||||
tttagacgttgactaaaggaccattagtaatgatgagagaggttcaataccataattagcatgcggtgaatgatccacagattggtgtgctacgatgcagATTCAAGCAGCATTCAGAACTGATGAGATTCGGCGCACACCACCAACGCCCCAAGACGAGATGCGTGCTGGTATGAGCTATTTTCATGAGACTATCTGGA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.taagtgtttttttgtctcgtttgtagataaaccaatgctggctccattctcgcagATTCAAGCTGCTTTTCGAACTGATGAAATAAGACGTGCGCCCCCAACCCCGCAGGACGAGATGCGTGCCGGGATGAGCTACTTTCACGAGACAATCTGGA
ctccattctc CT-rich tract
tttttttgt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagtgtttttttgtctcgtttgtagataaaccaatgctggctccattctcgcagATTCAAGCTGCTTTTCGAACTGATGAAATAAGACGTGCGCCCCCAACCCCGCAGGACGAGATGCGTGCCGGGATGAGCTACTTTCACGAGACAATCTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG