Sequence
atgc intronic sequence ATGC exonic sequencegtaatttcgcactcttcttgtatgttgcctgaagccggattcttgcagGTGAAAGAGTCTCCTAAGCTTAAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ38305 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ15040 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: LOC_Os08g17820.2 (Oryza sativa), 3'ss of exon 9
--------------------------------gtaatttcgcactcttc-ttgtatgttgcctgaagccg----gattcttgcagGTGAAAGAGTCTCCTAAGCTTAAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
| || | | | || | || | | | ||| | ||| | | | || ||||||| ||||| | ||||| || |||| || ||||||||||||||||||||||||||||||||||
gtggggcaattattgttaattacaaatttcttattatataatagttaagattatgcatttcataacatttctatgatgttcacagATAAGGGGTTCAGCTAAGCTGAAAAGGATTATGCAGACAATTCTTTCACTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
upper sequence: EFJ15040 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: LOC_Os02g55150.2 (Oryza sativa), 3'ss of exon 4
----------------------------------gtaatttcgcactc------ttcttgtatgttgcc-tgaagccggattcttgcagGTGAAAGAGTCTCCTAAGCTTAAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
|||| | | || ||| || | | ||| ||||| | | ||| ||||||||| ||||||||||||| |||| || |||||||||| ||||||||||||||||| || |
gtacactgttatataatatgacctcaagtcctcaaccttttcccgtttgacgagtttaaacatgctgttatataatgttatttggacagGTTAGGAACTCTGTTAAGCTTAAGCGAGTGATGCAAACAATTCTTTCGTTGGGAAATGCATTAAACCAAGGAACTGCAAGGG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaatttcgcactcttcttgtatgttgcctgaagccggattcttgcagGTGAAAGAGTCTCCTAAGCTTAAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
ttcttgc CT-rich tract
taattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatttcgcactcttcttgtatgttgcctgaagccggattcttgcagGTGAAAGAGTCTCCTAAGCTTAAAAGAGTGATGCAAACGGTTCTGTCCCTGGGAAATGCGTTAAACCAAGGAACTGCTAGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA