Sequence
atgc intronic sequence ATGC exonic sequencegtatgaatgagcgctatgcgctatcgtcgatgctgataatgattttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGC
Basic information
species | Selaginella moellendorffii |
transcript | EFJ15818 |
intron # | 7 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GRMZM2G010085_T01 (Zea mays), 3'ss of exon 5
---------------------------------gtatgaatgagcgctatgcgctatcgtcgatgctgataatgattttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGC
||| | | | | ||| | | | || || || | |||| | || || |||||| | | ||| | ||||| ||||| |||||||| || ||||| ||||| ||||||||||| || ||||| ||||| | ||||
gttgggatatagttttcgtgatcaccaattttagtaccttaaaatga-actctttataattgtttctcgcaacttttgcaaagGTTCTTCGCCCATTCCTTCTTAGGAGGCTCAAGTCTGATGTAGAAAAGGGCCTACCTCCAAAGAAAGAAACAATTCTTAAAGTTGGAATGTCTCAGATGC
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA13G28720.1 (Glycine max), 3'ss of exon 8
----------------------------------------gtatgaatgagcgctatgcgctatcgtcgatgctgataatgattttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGC
| | ||| | || | || | | ||| | | |||| | || || || || | ||||||||||||||||||||||| || ||| |||| || || |||||||| ||||| ||||| |||||||| ||||||
gtaaattacagaaccttcttttgattgttggaagtccttaatgttaatctggcacata-attgtcattttcattttctatgtatatcaagGTCCTCCGCCCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGGTTGCCACCGAAAAAGGAAACTATTCTTAAGGTAGGCATGTCCCAAATGC
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA17G02640.1 (Glycine max), 3'ss of exon 8
-----------------------------------gtatgaatgagcgctatgcgctatcgtcgatgctgataatg-attttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGC
| ||| | | | | || || | || | | |||| | || || ||||| | ||||||||||||||||||||||| || || |||| || || |||||||| |||||||| || |||||||| ||||||
gtaagccttgaagcttcttcattgttaagggtctattgtgataaaatgttgtataataatgttttcattttctgtgtgtaattaagGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA07G38050.2 (Glycine max), 3'ss of exon 8
------------------------------------gtatgaatgagcgctatgcgctatcgtcgatgctgataatg-attttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGC
| ||| | | ||| || || | || || | |||| | || || ||||| | ||||||||||||||||||||||| || || |||| || || |||||||| |||||||| || |||||||| ||||||
gtaagccttgaagcttctttgattgtttagggtctactgtgataaaatgttatataataatgttttcaatttctgtgcatgattaagGTCCTCCGTCCATTCCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGTTTGCCACCGAAAAAGGAAACCATTCTCAAAGTAGGCATGTCGCAAATGC
upper sequence: EFJ15818 (Selaginella moellendorffii), 3'ss of exon 7
lower sequence: GLYMA15G10370.1 (Glycine max), 3'ss of exon 8
----------------------------------------gtatgaatgagcgctatgcgctatcgtcgatgctgataatgattttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGC
| | ||| | || | || | | ||| | | |||| | || || || || | ||||||||||||||||||||||| || || |||| || || |||||||| ||||| || || |||||||| ||||||
gtaaattacagaaccttcttttgattgttggaagtccttgatgttaatctggcacata-attgtcattttcattttctatgtatatcaagGTCCTCCGACCATTTCTCCTTCGAAGGTTGAAGTCAGATGTTGAGAAAGGATTGCCACCAAAAAAGGAAACTATTCTTAAAGTAGGCATGTCCCAAATGC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtatgaatgagcgctatgcgctatcgtcgatgctgataatgattttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGC
tgctgat putative branch site (score: 3)
tgataatgatttta 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtatgaatgagcgctatgcgctatcgtcgatgctgataatgattttacagGTGTTGCGGCCTTTCCTTTTGCGAAGGTTGAAGTCAGATGTTGAAAAGGGGCTGCCTCCCAAGAAGGAAACAATTCTCAAGGTTGGCATGTCAAAAATGC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA