Sequence
atgc intronic sequence ATGC exonic sequencegtgagtattcccgtcattggttctccttttctgttctcatcagtttctctttctcttttcgtccagAACGCGGCGAAGCTTGATAGCGAAATCATCTATGACAGGGATTTCGACTATGACTACTTTGGATTCAAGACGCTCGAAAGATCATACCTCTTGAAAGTGA
Basic information
species | Selaginella moellendorffii |
transcript | EFJ14283 |
intron # | 3 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ14283 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: LOC_Os02g56100.1 (Oryza sativa), 3'ss of exon 3
-----------------------gtgagtattcccgtcattggttct---ccttttctgtt-------ctcatcagtttctctttctcttttcgtc-cagAACGCGGCGAAGCTTGATAGCGAAATCATCTATGACAGGGATTTCGACTATGACTACTTTGGATTCAAGACGCTCGAAAGATCATACCTCTTGAAAGTGA
|| | | | || || | | || || || | ||||| | | | | ||||| | | | || || || || || |||||||| ||||| ||||||||||||||||| || ||||| || || ||||| || || || |||||
atttcttgtgtggatatatttcttcaggtgcttcaattttttattatatgtatattgtgccaatgtgacttgataatttctatatgatgcaccatttcagAATACCACCCGCTTGGACAGTGAGATAATTTATGACAGAGATTTTGACTATGACTACTTTGGTTTTAAGACCCTTGAGAGATCTTATCTGTTAAAAGTTG
upper sequence: EFJ14283 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G340527_T01 (Zea mays), 3'ss of exon 3
----------------------------------------------------------------------------------------------------------------------------gtgagtat-tcccgtcattggttctccttt-------tctgttctcat-cagtttctctttctcttttcgtccagAACGCGGCGAAGCTTGATAGCGAAATCATCTATGACAGGGATTTCGACTATGACTACTTTGGATTCAAGACGCTCGAAAGATCATACCTCTTGAAAGTGA
|| | | | | | | || || |||| | | ||||| | | | | || || | ||||| || || | || || ||||| || ||||| |||||||||||||||||||||||||| ||||| || || || || || ||||||||||| |
gtgagattctagttgctcctggcacatttctgacagagcatctgtgtagataatgccgatgtgtttctggcagttgaatttactgttgcattcctttttttattaaggttgtttatctcatacagtaaatctgttgtgcccttcactcaccttgatgtaaattggccctcatatcgctccaaatgctgttacatttcagAATGCTGCTCGCTTGGACAGTGAAATAATTTATGATAGGGATTTCGACTATGACTACTTTGGCTTCAAAACTCTGGAGAGGTCTTACCTCTTGAAGCTTG
upper sequence: EFJ14283 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GRMZM2G304362_T01 (Zea mays), 3'ss of exon 3
----------------------------gtga-gtattcccgtcattggttctccttt----tctgttctcat-cagtttctctttctcttttcgtccagAACGCGGCGAAGCTTGATAGCGAAATCATCTATGACAGGGATTTCGACTATGACTACTTTGGATTCAAGACGCTCGAAAGATCATACCTCTTGAAAGTGA
|| || || || || || | | |||| | | | | || | ||||| || || | || || || || || ||||| |||||||||||||| ||||||||||| ||||| || || || || || ||||| ||||| |
acaaggctgtttatctcatacagtaaatctgttgtgccccgcacaacacaccttgttggaaattggccctcacatgactccaaatgatgttacatttcagAATGCTGCTCGCTTGGACAGTGAGATAATTTATGATAGGGATTTCGACTACGACTACTTTGGCTTCAAAACTCTGGAGAGGTCTTACCTGTTGAAGCTTG
upper sequence: EFJ14283 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA06G15350.1 (Glycine max), 3'ss of exon 3
----------------gtgagtattcccgtcattg-------gttctccttttctgttc----------tcatcagtttctctttctcttttcgtc-cagAACGCGGCGAAGCTTGATAGCGAAATCATCTATGACAGGGATTTCGACTATGACTACTTTGGATTCAAGACGCTCGAAAGATCATACCTCTTGAAAGTGA
| | | || || ||| ||| | ||||| ||| || | || | ||| ||| | |||| || || || || ||||| || |||||||||||||| || |||||||| || ||||||||||| || || || || || ||||||||||| ||
gatttatttatggtttgaaattctttaagttgttgtttggctgttgttcttttgtgtgtgaagaaataatcttttattattattttgtgtttggctgtagAATGCTGCTCGTCTAGACAGCGAGATAATCTATGACAGGGACTTTGACTATGATTATTTTGGATTCAAAACCCTTGAGAGGTCTTACCTCTTGAAGGTTC
upper sequence: EFJ14283 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: GLYMA05G32070.1 (Glycine max), 3'ss of exon 3
----------------------------------gtgagtattcccgtcattggttctccttttctgttctcatcagtttctctttctcttttcgtccagAACGCGGCGAAGCTTGATAGCGAAATCATCTATGACAGGGATTTCGACTATGACTACTTTGGATTCAAGACGCTCGAAAGATCATACCTCTTGAAAGTGA
| || | | || || | | | | ||| | | || | ||||| |||| | |||| || || | || || || || |||||||| ||||| || |||||||| |||||||| ||||| || || || || |||||||||||||| ||
gtgtgtgagtgtggtgtaattctatgcttttaagttttgtttggctgtgttttagtatgatgtgaaattcactttggtattgttttctattttgttttagAATGCTGCTCGATTGGACAGTGAGATAATCTATGATAGGGACTTTGACTATGATTACTTTGGTTTCAAAACTCTTGAGAGGTCATACCTCTTGAAGGTTC
upper sequence: EFJ14283 (Selaginella moellendorffii), 3'ss of exon 3
lower sequence: AT2G21790.1 (Arabidopsis thaliana), 3'ss of exon 3
-------------------------------------------------gtgagtattcccgtcattggttctccttttctgttctcatcagtttctctttctctt-ttcgtccagAACGCGGCGAAGCTTGATAGCGAAATCATCTATGACAGGGATTTCGACTATGACTACTTTGGATTCAAGACGCTCGAAAGATCATACCTCTTGAAAGTGA
| ||| | | | | | | ||| || | | | || || | |||||||| || | || || || |||||||||||| | ||||| || ||||| ||||||||||| || || || || ||||| ||||||||||||||
gtaaagaaatcttgtgttaagctcttgattcaatctgtttcttggtgtgatatatatatatatatatatgtatgtatcttataaatcactgacttgtgtgttactggtttcttcagAACGCTGCTCGTTTGGACAGTGAGATCATCTATGACCGTGATTTTGAATATGATTACTTTGGATTTAAAACTCTTGAGAGATCGTACCTCTTGAAAGTCC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.cgtcattggttctccttttctgttctcatcagtttctctttctcttttcgtccagAACGCGGCGAAGCTTGATAGCGAAATCATCTATGACAGGGATTTCGACTATGACTACTTTGGATTCAAGACGCTCGAAAGATCATACCTCTTGAAAGTGA
ttctccttttctgttc CT-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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtattcccgtcattggttctccttttctgttctcatcagtttctctttctcttttcgtccagAACGCGGCGAAGCTTGATAGCGAAATCATCTATGACAGGGATTTCGACTATGACTACTTTGGATTCAAGACGCTCGAAAGATCATACCTCTTGAAAGTGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGATCA