Sequence
atgc intronic sequence ATGC exonic sequencegtctccaaggcaaatcccgcaaaacccatgatcaaacttgtcaagttcttcgcttgaatctgtgcttgcttgctttttcctgtgtgccagGTTTCCAGATCTCCCACTCCATGGGAGGTGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGAATGATGCT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ28017 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ28017 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: EDP03008 (Chlamydomonas reinhardtii), 3'ss of exon 3
-----------------------------------------------gtctccaaggcaaatcccgcaaaacccatgatcaaacttgtcaagttcttcgcttg--aatctgtgcttgcttgctttttcctgtgtgccagGTTTCCAGATCTCCCACTCCATGGGAGGTGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGAATGATGCT
| || | | || | || || || ||| ||| || ||| | | | |||| | || ||| | |||| |||||| | | |||||| |||| ||||| ||||| || || ||||| || ||||| ||||||||||| || ||||| ||||||||||| ||||||||
gtgagcagttttgcacgggccgccgggtgtcggggtgtggaccgcagggcttggcatgacgggctgctgggtctgtgctc---ctcgtcgtcttcaacggttgctgacttctctcctcttgttgttccct-tccctcagGCTTCCAGGTTTGCCACTCTCTGGGTGGTGGCACTGGCTCCGGCATGGGCACCCTGCTGATCTCCAAGATCCGTGAGGAGTACCCCGACCGCATGATGCT
upper sequence: EFJ28017 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: EDP02933 (Chlamydomonas reinhardtii), 3'ss of exon 3
----------------------------------gtctccaaggcaaatcccg-caaaaccca-tgatcaaacttgtcaagttcttcgcttgaatctgtgcttgcttgctttttcctgtgtgc-----------cagGTTTCCAGATCTCCCACTCCATGGGAGGTGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGAATGATGCT
|| | | ||| | || || || || | ||| ||||| | | || || | || | ||| ||| | |||| |||||| ||| |||||| |||| || || || || || || ||||| || ||||| ||||||||||| || ||||| ||||||||||| ||||||||
gtgagcagttctgcacgggccgtcgggtgtcagtgtatggaccgcagggctcggcatgacgggctgctttgggctgtgcgccccttcgtcttcacacgttgctgacttctctctcccctgttcttccctaccctcagGCTTCCAGGTCTGCCACTCTCTGGGTGGCGGCACCGGCTCCGGCATGGGCACCCTGCTGATCTCCAAGATCCGTGAGGAGTACCCCGACCGCATGATGCT
upper sequence: EFJ28017 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S35_125V6.1 (Physcomitrella patens), 3'ss of exon 2
-----gtctc-caaggcaaatcccgcaaaacccatgatcaaacttgtcaagttcttc---gcttgaatctgtgcttgcttgctttttcctgtgtgc-cagGTTTCCAGATCTCCCACTCCATGGGAGGTGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGAATGATGCT
|| || || ||| | | | || ||| | | | | || | | || || | | | | ||| | | | |||| || ||||| | || |||||||||||||| || || || || ||||||||||| |||||||| |||||| | |||||||| || || || |||||| |
caacggtttcacagaacaatttttttattattcagtcacaatttcgaagggaccatctgagatactatatgagttgttgtattgtttgattggcgaacagGATTTCAGATTTGTCATTCCATGGGAGGTGGAACGGGATCAGGCATGGGGACGCTTCTCATCTCAAAGATTAGGGAGGAATATCCGGATCGCATGATGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.acttgtcaagttcttcgcttgaatctgtgcttgcttgctttttcctgtgtgccagGTTTCCAGATCTCCCACTCCATGGGAGGTGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGAATGATGCT
cttgcttgctttttcc CT-rich tract
ttttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctccaaggcaaatcccgcaaaacccatgatcaaacttgtcaagttcttcgcttgaatctgtgcttgcttgctttttcctgtgtgccagGTTTCCAGATCTCCCACTCCATGGGAGGTGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGAATGATGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT