Sequence
atgc intronic sequence ATGC exonic sequencegtaatgcttccggctgatcgttttgatttctaactttctgctttcaatgcagAAAAATTGTCTTAGCGACGAATATTGCAGAAACTAGCATAACTATTGATGACGTTGTGTATGTTATCGACTGTGGGAAAGCTAAGGAAACTAGCTATGAT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ25900 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ25900 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA10G10180.1 (Glycine max), 3'ss of exon 12
------------------------------------------------gtaatgcttccggctgatcgttttgatttctaactttctgctttcaatgcagAAAAATTGTCTTAGCGACGAATATTGCAGAAACTAGCATAACTATTGATGACGTTGTGTATGTTATCGACTGTGGGAAAGCTAAGGAAACTAGCTATGAT
| | | | | | | | ||| | || | || || ||||||||||| |||| || |||||||| || | |||||| || || ||||||||||||||||| || |||||||| ||||| ||||| || |||||||||
tatcagatgatcagtaaagatgaggggtattttgctcatatatatttgattttctcatcattttagcatctatgttttgattgttatttttctgttgtagAAAAATTGTGCTAGCAACAAATATTGCTGAGAGTAGCATCACCATAGATGACGTTGTGTATGTCATAGACTGTGGCAAAGCAAAGGAGACCAGCTATGAT
upper sequence: EFJ25900 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA02G35240.1 (Glycine max), 3'ss of exon 13
--------------------------------------gtaatgctt--ccggctgatcgtt----ttga----tttctaactttctgctttcaatgcagAAAAATTGTCTTAGCGACGAATATTGCAGAAACTAGCATAACTATTGATGACGTTGTGTATGTTATCGACTGTGGGAAAGCTAAGGAAACTAGCTATGAT
||||| | | | ||||| | ||| ||| | || | | || |||||||| || |||| || |||||||| || | |||||| || || ||||||||||||||||| || ||||| || ||||| ||||| || |||||||||
ttataatggtcttcttatagttgactttttgctttattgtaatatataatcagatgatcagtaaagctgaggggttttgattgttattttgctgttgtagAAAAATCGTGCTAGCAACAAATATTGCTGAGAGTAGCATCACCATAGATGACGTTGTGTATGTCATAGACTGGGGAAAAGCAAAGGAGACCAGCTATGAT
upper sequence: EFJ25900 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: AT2G35920.1 (Arabidopsis thaliana), 3'ss of exon 10
------------------------------------------gtaatgcttccggctgatcgttttgatttctaactttctgctttcaatgcagAAAAATTGTCTTAGCGACGAATATTGCAGAAACTAGCATAACTATTGATGACGTTGTGTATGTTATCGACTGTGGGAAAGCTAAGGAAACTAGCTATGAT
| ||||| | || | | | || |||||||| || || ||||| || || || || || ||||| || | ||| || || |||||||| ||||| |||||| | || ||||| ||||| ||||||||||||||||||
gttagccctctgagctatcgattcgtcatttcttcttttatcattctgctttgtagcaacttttctaag--cgaatgctctgcttt---tgtagGAAAATAGTTTTGGCTACAAACATTGCCGAGAGTAGTATTACAATTGATGATGTTGTATATGTTGTGGATTGTGGTAAAGCAAAGGAAACTAGCTATGAT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtaatgcttccggctgatcgttttgatttctaactttctgctttcaatgcagAAAAATTGTCTTAGCGACGAATATTGCAGAAACTAGCATAACTATTGATGACGTTGTGTATGTTATCGACTGTGGGAAAGCTAAGGAAACTAGCTATGAT
ttctaac putative branch site (score: 1)
ctttctgctttc CT-rich tract
ttttgattt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaatgcttccggctgatcgttttgatttctaactttctgctttcaatgcagAAAAATTGTCTTAGCGACGAATATTGCAGAAACTAGCATAACTATTGATGACGTTGTGTATGTTATCGACTGTGGGAAAGCTAAGGAAACTAGCTATGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA