Sequence
atgc intronic sequence ATGC exonic sequencegtaactcttgctgtgttttttttccttgccttcattctttggtgacactggagctgtagGTACTTGGCACCTGAGTATACTCAAACAGGACAAATCACAGAGAAAGCCGATGTTTACTCTTTTGGCATCGTGCTCCTGGAGCTTGTAAGTGGTCGGAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ12405 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ12405 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: LOC_Os01g41870.1 (Oryza sativa), 3'ss of exon 7
----------------gtaactct-tgctgtgttttttttcc-ttgccttcattctttggtgacact------gg--agctgtagGTACTTGGCACCTGAGTATACTCAAACAGGACAAATCACAGAGAAAGCCGATGTTTACTCTTTTGGCATCGTGCTCCTGGAGCTTGTAAGTGGTCGGAAG
| |||| | || ||| | | | || || | || || || || ||| || || ||||||| || || | || | |||||||| ||||||||||| ||||| ||||||||||| | ||| | | || ||||| | ||| || |||
gtaaatattgagatttgcaactgtgtgttgtaaccatgtgcagttttgggcacttattaacgaggctctgcttggctgtctgcagTTATCTGGCACCAGAATACGCACAGAGTGGACAAATAACAGAGAAAGCTGATGTATACTCTTTTGGGGTTGTGTTAGTTGAACTTGTCACTGGGCGCAAG
upper sequence: EFJ12405 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: AT1G55200.1 (Arabidopsis thaliana), 3'ss of exon 6
-----------------------gtaactcttgctgtgttttttttccttgccttcattctttggtgacactggagctgtagGTACTTGGCACCTGAGTATACTCAAACAGGACAAATCACAGAGAAAGCCGATGTTTACTCTTTTGGCATCGTGCTCCTGGAGCTTGTAAGTGGTCGGAAG
| | ||| || | | || || || | |||| || | | | | ||| || || || || |||||| |||||| |||||||||||||||||||||||||||||||| || || | || | | || || | | ||||| ||
gtaacaaaatttataactaaatcatcattctcactctagagtaatttctcaactactttctgtgtt-----tcttgttttagCTATTTAGCTCCAGAGTATGCTCAAAGTGGACAAATCACAGAGAAAGCCGATGTTTACTCGTTCGGGGTTGTATTGATCGAACTAATCACGGGTCGTAAA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.ctcttgctgtgttttttttccttgccttcattctttggtgacactggagctgtagGTACTTGGCACCTGAGTATACTCAAACAGGACAAATCACAGAGAAAGCCGATGTTTACTCTTTTGGCATCGTGCTCCTGGAGCTTGTAAGTGGTCGGAAG
tgtttttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaactcttgctgtgttttttttccttgccttcattctttggtgacactggagctgtagGTACTTGGCACCTGAGTATACTCAAACAGGACAAATCACAGAGAAAGCCGATGTTTACTCTTTTGGCATCGTGCTCCTGGAGCTTGTAAGTGGTCGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGCTT