Sequence
atgc intronic sequence ATGC exonic sequencegtgggctttttctttcgtttctcttgatggatcatagttgttcttacgtgatctattggaagtttagATCGAGAACCAGGAAGGACTGGTGAACTTCGACGAGATCCTCCGTGAGTCGGACGCGATCATGGTGGCCAGGGGCGATCTCGGCATGGAGATCCCAACGG
Basic information
species | Selaginella moellendorffii |
transcript | EFJ36162 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: EFJ36162 (Selaginella moellendorffii), 3'ss of exon 2
lower sequence: PP1S90_134V6.1 (Physcomitrella patens), 3'ss of exon 3
------------------------------gtgggctttttctttcgtttctcttgatggatcatagttgt-tctta--cgtgatctattggaagtttagATCGAGAACCAGGAAGGACTGGTGAACTTCGACGAGATCCTCCGTGAGTCGGACGCGATCATGGTGGCCAGGGGCGATCTCGGCATGGAGATCCCAACGG
|| | | || | | | || || | ||| || | | || || | | || |||||||||||||||| ||||| ||||||||||| || | ||| |||| | ||||||||||||| || || || || |||||||| ||||| |
ttgtgcaaaatcaacattccgaccaatctcttgtcgtgatatttctgaaaccgtagaaaaattaacaatgtgtcccaaccctgccttaattattttgaagGTCGAGAACCAGGAAGGTCTGGTCAACTTCGACGATATATTGAAAGAGACGGATGGAGTCATGGTGGCCAGAGGTGACCTGGGTATGGAGATTCCAACAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tttcgtttctcttgatggatcatagttgttcttacgtgatctattggaagtttagATCGAGAACCAGGAAGGACTGGTGAACTTCGACGAGATCCTCCGTGAGTCGGACGCGATCATGGTGGCCAGGGGCGATCTCGGCATGGAGATCCCAACGG
ttcttac putative branch site (score: 2)
atctatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgggctttttctttcgtttctcttgatggatcatagttgttcttacgtgatctattggaagtttagATCGAGAACCAGGAAGGACTGGTGAACTTCGACGAGATCCTCCGTGAGTCGGACGCGATCATGGTGGCCAGGGGCGATCTCGGCATGGAGATCCCAACGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CATGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAGAT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GAGATC