Sequence
atgc intronic sequence ATGC exonic sequence...tgcacagcttctggatctcagccggcgatacatcgcaccgtcgtggacatggagatgatcaaaggaatcaaagggcatggttactaccactagctcgtagTCCCGATCATTGAAAACTCTGCGTATGAATATGAGGTCACGAATTCTATAGCAGCAGCC
Basic information
species | Selaginella moellendorffii |
transcript | EFJ05771 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ05771 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GRMZM2G574782_T01 (Zea mays), 3'ss of exon 3
-----------------------------------------------------tgcacagcttctggatc--tcagccggcgatac--atcgcaccgtcgtggac----atggagatgatcaaaggaatcaaagggcatggttactaccactagctcgtagTCCCGATCATTGAAAACTCTGCGTATGAATATGAGGTCACGAATTCTATAGCAGCAGCC
| | | || | || ||| | ||| | | | ||| ||||| |||||||||||||||||||| ||||| ||| | | | | || | || || ||||| || | | ||||| |||||| |||
cctaaaattcatagtggattctattgtatatttgtatgctagaataattgtggtaagaaaatccttatttgactagatactgatgctgatcttattgcagGTGACCCACATGGAAATGATCAAAGGAATCAAAGGTCATGGCTACCATGATGAATTGGTCATTCCTATTATTGAGAATACCCCTTATGAGTATGAGCTCA--------------------
upper sequence: EFJ05771 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: GLYMA06G36620.1 (Glycine max), 3'ss of exon 3
----------------------------------------------------------tgcacagctt--ctggatctcagccggcgatacatcgcaccg-tcgtggacatggagatgatcaaaggaatcaaagggcatggttactaccactagctcgtagTCCCGATCATTGAAAACTCTGCGTATGAATATGAGGTCACGAATTCTATAGCAGCAGCC
||| | || | ||| | | | ||| | | | ||||||| ||||| ||||||||||| ||||||||||| || | | || || |||| || || || ||| | || || ||||||||| | |
ttagctgtaattgtgactcattttattaaattgtgtgtttcagtaatttgtttttctctgcttattttgatttgattctggttgtcttcacaaattgcagATAACTCACATGGAAATGATAAAAGGAATCAAGGGGCATGGTTATTATGATGAACTTGTGATCCCCATAATAGAGAACACAGCCTACGAATATGAGCTTA-------------------- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gacatggagatgatcaaaggaatcaaagggcatggttactaccactagctcgtagTCCCGATCATTGAAAACTCTGCGTATGAATATGAGGTCACGAATTCTATAGCAGCAGCC
aatcaaa 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tgcacagcttctggatctcagccggcgatacatcgcaccgtcgtggacatggagatgatcaaaggaatcaaagggcatggttactaccactagctcgtagTCCCGATCATTGAAAACTCTGCGTATGAATATGAGGTCACGAATTCTATAGCAGCAGCC
- - cagcttc
- - - - - - ggatctc
- - - - - - - - - - - - - - - - - - - - - - - - -tggagat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - aaaggaat
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -ctaccac