Sequence
atgc intronic sequence ATGC exonic sequencegtgagatacttgcaattgcttgtacagctgacgcagctgtgcctggtagGCGTTTGAGAAGCTGTTTTCGGGAATGTATCTGGGTGACATTGTGAGGAGGGTCATTCTCAAGCTTGCGCAGGATGCCTGCCTATTTGGCGGCAGCATAC
Basic information
species | Selaginella moellendorffii |
transcript | EFJ14634 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ14634 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: GLYMA12G02450.1 (Glycine max), 3'ss of exon 6
--------------------------gtgagatacttgcaattgcttgtacagctgacgcagctgtgcctg--gtagGCGTTTGAGAAGCTGTTTTCGGGAATGTATCTGGGTGACATTGTGAGGAGGGTCATTCTCAAGCTTGCGCAGGATGCCTGCCTATTTGGCGGCAGCATAC
|| | || | || | | | | || ||| || ||||| |||||||| || | || ||||||||||| |||||||| |||||||| |||||||| | | | ||| || | | |||| |
gttaggttctgctgctcatgaatcctgttgcttgattcaagatgact-caaatcagattttgctaattttgatgtagGGTTTTGAGAAAATGATATCTGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATGTCGCTAGAGTCAGATATGCTTGGACCTATTTCTT
upper sequence: EFJ14634 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: GLYMA11G10130.1 (Glycine max), 3'ss of exon 6
---------------------------gtgagatacttgcaattgcttgta-cagctgacgcagctgtgcctggtagGCGTTTGAGAAGCTGTTTTCGGGAATGTATCTGGGTGACATTGTGAGGAGGGTCATTCTCAAGCTTGCGCAGGATGCCTGCCTATTTGGCGGCAGCATAC
|| | | || || | ||| | | | | | || |||| |||||||| || | || ||||||||||| |||||||| |||||||| |||||||| | | | || || | | ||||| |
gttaggttctgttgctcacgaatccagttgcttgattcaggatgactcaaatcagattttggaaattttgatg-tagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGGAGAGTCATTCTAAGGATGTTGCTAGAGTCAGATATGTTTGGACCTATTTCTT
upper sequence: EFJ14634 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: GLYMA11G01820.1 (Glycine max), 3'ss of exon 6
------------gtgagatacttgcaattgcttg------tacagctga-----cgcagctgtgcctggtagGCGTTTGAGAAGCTGTTTTCGGGAATGTATCTGGGTGACATTGTGAGGAGGGTCATTCTCAAGCTTGCGCAGGATGCCTGCCTATTTGGCGGCAGCATAC-
| ||| | | ||||||| | || | | || | || || ||| |||||||| || | || ||||||||||| |||||||| ||||| || |||||||||||| | | || | | ||||| || |
gtgagtttctgcatctgatgactcctgttgcttgatttgtcatgactaaaattttggagatttgggtg-cagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATCGTGAGAAGAGTCATTCTCAAGATGTCATTAGAGTCGGATATGTTTGG-ACCAATTTCTC
upper sequence: EFJ14634 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: GLYMA01G43650.1 (Glycine max), 3'ss of exon 6
------------gtgagatacttgcaattgcttg------tacagctga-----cgcagctgtgcctggtagGCGTTTGAGAAGCTGTTTTCGGGAATGTATCTGGGTGACATTGTGAGGAGGGTCATTCTCAAGCTTGCGCAGGATGCCTGCCTATTTGGCGGCAGCATAC-
| ||| | | ||||||| | || | | || | || || ||| |||||||| || | || ||||||||||| |||||||||||||| || |||||||| ||| | | || | | ||||| || |
gtgaggttcggcatttgatgactcctgttgcttgatttgtcatgactaaaattttggagatttgggtg-cagGGTTTTGAGAAAATGATATCAGGAATGTATCTTGGTGACATTGTGAGAAGAGTCATTCTTAAGATGTCATTAGAGTCGGATATGTTTGG-ACCAATTTCTC
upper sequence: EFJ14634 (Selaginella moellendorffii), 3'ss of exon 6
lower sequence: AT1G50460.1 (Arabidopsis thaliana), 3'ss of exon 6
----------------------------------------------gtgagatacttgc-aattgcttgtacagctgacgcagctgtgcctggtagGCGTTTGAGAAGCTGTTTTCGGGAATGTATCTGGGTGACATTGTGAGGAGGGTCATTCTCAAGCTTGCGCAGGATGCCTGCCTATTTGGCGGCAGCATAC
| || | | | |||| | | | | |||| ||||||||| || | || ||||||||||||||||||||||| | || || |||||| | | | ||| | | ||||| || | |
gtaatctttgccatacttccctgtttttccgatttggtattgcgttattagtttttaaccaattaacatcaacatcatttggggtttcttacatagGGATTTGAGAAGATGATATCAGGAATGTATCTGGGTGACATTGTTCGTAGAGTAATTCTCCGCATGTCAGAAGATTCTGATATCTTTGGACCCATCTCGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtgagatacttgcaattgcttgtacagctgacgcagctgtgcctggtagGCGTTTGAGAAGCTGTTTTCGGGAATGTATCTGGGTGACATTGTGAGGAGGGTCATTCTCAAGCTTGCGCAGGATGCCTGCCTATTTGGCGGCAGCATAC
agctgac putative branch site (score: 3)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagatacttgcaattgcttgtacagctgacgcagctgtgcctggtagGCGTTTGAGAAGCTGTTTTCGGGAATGTATCTGGGTGACATTGTGAGGAGGGTCATTCTCAAGCTTGCGCAGGATGCCTGCCTATTTGGCGGCAGCATAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGGATG