Sequence
atgc intronic sequence ATGC exonic sequencegtctccaaggcaaagcacaaaacccatggtcaaacttgcggattctttgcttaactctgtgcttgcgtttcagGCTTCCAGATCTCCCACTCCATGGGAGGCGGGACGGGGTCGGGGATGGGGACGCTGCTCATCTCCAAGATCCGCGAGGAATATCCCGACCGCATGATGCT
Basic information
species | Selaginella moellendorffii |
transcript | EFJ07091 |
intron # | 1 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ07091 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: EDP02933 (Chlamydomonas reinhardtii), 3'ss of exon 3
---------------------------------------------------------------gtctccaaggcaaagcacaaaacccatggtcaaac-ttgcggattctttgcttaactctgtgcttgcgt---ttcagGCTTCCAGATCTCCCACTCCATGGGAGGCGGGACGGGGTCGGGGATGGGGACGCTGCTCATCTCCAAGATCCGCGAGGAATATCCCGACCGCATGATGCT
| ||| || | | | ||| || |||| || | | || | |||| ||| | | |||||||||||| ||| |||||| |||| ||||| || || || || ||||| || ||||| |||||||||||||| ||||| || |||||||||||||||||
gtgagcagttctgcacgggccgtcgggtgtcagtgtatggaccgcagggctcggcatgacgggctgctttgggctgtgcgcccc-ttcgtcttcacacgttgctgacttctctctc--ccctgttcttccctaccctcagGCTTCCAGGTCTGCCACTCTCTGGGTGGCGGCACCGGCTCCGGCATGGGCACCCTGCTGATCTCCAAGATCCGTGAGGAGTACCCCGACCGCATGATGCT
upper sequence: EFJ07091 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: EDP03008 (Chlamydomonas reinhardtii), 3'ss of exon 3
--------------------------------------------------------------gtctccaaggcaaagcacaaaacccatggtcaaacttgcggattctttgcttaactctgtgcttgcgtttcagGCTTCCAGATCTCCCACTCCATGGGAGGCGGGACGGGGTCGGGGATGGGGACGCTGCTCATCTCCAAGATCCGCGAGGAATATCCCGACCGCATGATGCT
| | | | || | | | |||| || | | | | ||| | |||||||||||| | | |||||| |||| || || || || || || ||||| || ||||| |||||||||||||| ||||| || |||||||||||||||||
gtgagcagttttgcacgggccgccgggtgtcggggtgtggaccgcagggcttggcatgacgggctgctgggtctgtgctcctcgtcgtcttcaacggttgctgacttctctcctcttgttgttcccttccctcagGCTTCCAGGTTTGCCACTCTCTGGGTGGTGGCACTGGCTCCGGCATGGGCACCCTGCTGATCTCCAAGATCCGTGAGGAGTACCCCGACCGCATGATGCT
upper sequence: EFJ07091 (Selaginella moellendorffii), 3'ss of exon 1
lower sequence: PP1S35_125V6.1 (Physcomitrella patens), 3'ss of exon 2
--------------------------gtctccaaggcaaagcacaaaacccatggtcaaacttgc-ggattctttgcttaactctgtgcttgcgtttcagGCTTCCAGATCTCCCACTCCATGGGAGGCGGGACGGGGTCGGGGATGGGGACGCTGCTCATCTCCAAGATCCGCGAGGAATATCCCGACCGCATGATGCT
| || || | || | || | | | || ||| | | | | || ||| |||| || ||||| | || ||||||||||| || ||||| || || ||||||||||| |||||||| ||||| | ||||||||||| || ||||||||| |
caacggtttcacagaacaatttttttattattcagtcacaatttcgaagggaccatctgagatactatatgagttgttgtattgtttgattggcgaacagGATTTCAGATTTGTCATTCCATGGGAGGTGGAACGGGATCAGGCATGGGGACGCTTCTCATCTCAAAGATTAGGGAGGAATATCCGGATCGCATGATGGT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aaaacccatggtcaaacttgcggattctttgcttaactctgtgcttgcgtttcagGCTTCCAGATCTCCCACTCCATGGGAGGCGGGACGGGGTCGGGGATGGGGACGCTGCTCATCTCCAAGATCCGCGAGGAATATCCCGACCGCATGATGCT
gcttaac putative branch site (score: 3)
attcttt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtctccaaggcaaagcacaaaacccatggtcaaacttgcggattctttgcttaactctgtgcttgcgtttcagGCTTCCAGATCTCCCACTCCATGGGAGGCGGGACGGGGTCGGGGATGGGGACGCTGCTCATCTCCAAGATCCGCGAGGAATATCCCGACCGCATGATGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGCT