Sequence
atgc intronic sequence ATGC exonic sequencegtctccaaggcaaatcccgcaaaacccacgatcaaacttgtcaagttcttcgcttgaatctgtgcttgctttttcctgtgtgccagGTTTCCAGATCTCCCACTCCATGGGAGGCGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGGATGATGCT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ29447 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ29447 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: EDP02933 (Chlamydomonas reinhardtii), 3'ss of exon 3
-------------------------------------------------gtctccaaggcaaatcccgcaaaac----ccacgatcaaacttgtcaagttcttcgcttgaatctgtgcttgctttttcctgtgtgccagGTTTCCAGATCTCCCACTCCATGGGAGGCGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGGATGATGCT
|| || | | | | | | | ||| || ||| | ||| ||| | || | || ||| |||| |||||| ||| |||||| |||| ||||| || || || || ||||| || ||||| ||||||||||| || ||||| ||||||||||| ||||||||
gtgagcagttctgcacgggccgtcgggtgtcagtgtatggaccgcagggctcggcatgacgggctgctttgggctgtgcgccccttcgtcttcacacgttgctgacttctctctcc-cctgttcttccctaccc-tcagGCTTCCAGGTCTGCCACTCTCTGGGTGGCGGCACCGGCTCCGGCATGGGCACCCTGCTGATCTCCAAGATCCGTGAGGAGTACCCCGACCGCATGATGCT
upper sequence: EFJ29447 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: EDP03008 (Chlamydomonas reinhardtii), 3'ss of exon 3
----------------------------------gtctccaaggcaaatcccg-caaaacccacgatcaaacttgtcaagttcttcg-cttgaatctgtgcttgctttttcctgtgtg-------------ccagGTTTCCAGATCTCCCACTCCATGGGAGGCGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGGATGATGCT
|| | | ||| | | || || | ||| || ||| ||| || |||| ||| | | || |||| |||||| | | |||||| |||| || || ||||| || || ||||| || ||||| ||||||||||| || ||||| ||||||||||| ||||||||
gtgagcagttttgcacgggccgccgggtgtcggggtgtggaccgcagggcttggcatgacgggctgctgggtctgtgctcctcgtcgtcttcaacggttgctgacttctctcctcttgttgttcccttccctcagGCTTCCAGGTTTGCCACTCTCTGGGTGGTGGCACTGGCTCCGGCATGGGCACCCTGCTGATCTCCAAGATCCGTGAGGAGTACCCCGACCGCATGATGCT
upper sequence: EFJ29447 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S35_125V6.1 (Physcomitrella patens), 3'ss of exon 2
-----gtctc-caaggcaaatcccgcaaaacccacgatcaaacttgtcaagttcttc-----gcttgaatctgtgcttgctttttcctgtgtgc---cagGTTTCCAGATCTCCCACTCCATGGGAGGCGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGGATGATGCT
|| || || ||| | | | || ||| | | | | || | || || ||| || | | || |||| || ||||| | || ||||||||||| || || || || || ||||||||||| |||||||| |||||| | |||||||| || || || |||||| |
caacggtttcacagaacaatttttttattattcagtcacaatttcgaagggaccatctgagatactatatgagttgttgtattgtttgattggcgaacagGATTTCAGATTTGTCATTCCATGGGAGGTGGAACGGGATCAGGCATGGGGACGCTTCTCATCTCAAAGATTAGGGAGGAATATCCGGATCGCATGATGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tcaaacttgtcaagttcttcgcttgaatctgtgcttgctttttcctgtgtgccagGTTTCCAGATCTCCCACTCCATGGGAGGCGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGGATGATGCT
tgcttgctttttcct 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctccaaggcaaatcccgcaaaacccacgatcaaacttgtcaagttcttcgcttgaatctgtgcttgctttttcctgtgtgccagGTTTCCAGATCTCCCACTCCATGGGAGGCGGGACTGGTTCGGGGATGGGGACGCTGCTCATCTCCAAGATTCGCGAGGAATACCCCGACCGGATGATGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT