Sequence
atgc intronic sequence ATGC exonic sequencegtatacttttttctctatgtccaaaacaagatatgataatcactggtgatcggtgaaatgctcagggctccgtgattgttatcagGGGAGAAGGTCCCAAAGGTGGTCCGGGAATGCCTGAGATGCTAACTCCTACAAGTGCGATCATGGGTGCTGGCTTGGGGAAG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ18570 |
intron # | 10 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ18570 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: LOC_Os08g44530.1 (Oryza sativa), 3'ss of exon 10
------------------------------------gtatacttttttctctatgtccaaaacaagatatgataatcactggtgatcggtgaaatgctcagggctccgtgattgttatcagGGGAGAAGGTCCCAAAGGTGGTCCGGGAATGCCTGAGATGCTAACTCCTACAAGTGCGATCATGGGTGCTGGCTTGGGGAAG
|| ||| | ||| | | | | ||| | ||| || | | ||||| || | || || | |||||||| || |||||||| || || |||||||| ||||| ||||| || ||||| || ||||||||||| | ||||
tatttccttttacgctcttgacaagggaatgcattagttcactgggacaaccatgcatagt-cttgttctgaattactctgctggcatgcaatcacaacagGGGAAGGTAGTAGTGATACGAGGAGAAGGACCGAAAGGTGGACCAGGGATGCCTGAAATGCTGACTCCAACTAGTGCAATAATGGGTGCTGGTCTTGGGA--
upper sequence: EFJ18570 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: GLYMA13G27810.1 (Glycine max), 3'ss of exon 10
-------------------------------------gtatacttttttctctatgtccaaaaca-agatatgataatcactggtgatcggtgaaatgctcagggctccgtgattgttatcagGGGAGAAGGTCCCAAAGGTGGTCCGGGAATGCCTGAGATGCTAACTCCTACAAGTGCGATCATGGGTGCTGGCTTGGGGAAG
|| | | ||| | |||| | ||||||| || | || | | | | |||||| ||| |||| ||||||||||| || ||||| |||||||||||||||||||||||| |||| || |||||||| || |||||||| || | || |
caattttgctgtagtatttgtttggtttgacacagatataaccacagtaggtgatggctaaaatggaaatatgatt-tcttttgtattt--tcattttttcagGGGAAAGTGGTTGTAATCAGGGGAGAGGGACCCAAGGGTGGTCCGGGAATGCCTGAGATGTTAACACCAACAAGTGCAATAATGGGTGCAGGTCTTGGAA--
upper sequence: EFJ18570 (Selaginella moellendorffii), 3'ss of exon 10
lower sequence: AT3G23940.1 (Arabidopsis thaliana), 3'ss of exon 10
---gtatacttttttctct-atgtccaaaacaagatatgataat-cactggtgatc-ggtgaaatgc--------tcagggctccgtgattgttatcagGGGAGAAGGTCCCAAAGGTGGTCCGGGAATGCCTGAGATGCTAACTCCTACAAGTGCGATCATGGGTGCTGGCTTGGGGAAG
| | |||| | | | | || || || || || | || | | ||| | ||||||| |||||| | ||| |||||||||| ||||| || || ||||| ||||| || |||||||||||| | || || |||||||| || |||||||| || | || |
gtaatttcctttctgatatgaagttcatctcaggagctggttatatatcttttatctgatgaaatgtatcgtgtttcagGGAACTGTGGTTGTTATCAGAGGAGAGGGGCCTAAAGGAGGTCCAGGTATGCCTGAGATGTTGACACCGACAAGTGCAATAATGGGTGCCGGTCTTGGAA-- atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.atatgataatcactggtgatcggtgaaatgctcagggctccgtgattgttatcagGGGAGAAGGTCCCAAAGGTGGTCCGGGAATGCCTGAGATGCTAACTCCTACAAGTGCGATCATGGGTGCTGGCTTGGGGAAG
attgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatacttttttctctatgtccaaaacaagatatgataatcactggtgatcggtgaaatgctcagggctccgtgattgttatcagGGGAGAAGGTCCCAAAGGTGGTCCGGGAATGCCTGAGATGCTAACTCCTACAAGTGCGATCATGGGTGCTGGCTTGGGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATG