Sequence
atgc intronic sequence ATGC exonic sequence...aaaaaaaattcgttgtggtggagttcgtagttgaatcgggaaataaccgtgtgcaagttcgcaagtgagagtgttcatgtgacaacctttgggcgtgcagGTGTACACAGTGGGACCAGAATATGCCCATGCAGAAGCTCGAAAATCTCCTGTTGTTGACGGGGTAGTTATGAGAAGTGCAGACGGGAAGGAG
Basic information
species | Physcomitrella patens |
transcript | PP1S70_284V6.1 |
intron # | 8 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S70_284V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: AT5G15070.1 (Arabidopsis thaliana), 3'ss of exon 9
aaaaaaaattcgttgtggtggagttcgtagttgaatcgggaaataaccgtgtgcaagttcgcaagtga-gagtgttcatgtgacaacct--ttgggcgtgcagGTGTACACAGTGGGACCAGAATATGCCCATGCAGAAGCTCGAAAATCTCCTGTTGTTGACGGGGTAGTTATGAGAAGTGCAGACGGGAAGGAG
|| | | ||| |||| | || || || || ||| | | ||| |||| || ||||| || | | ||||| ||||| ||||| || |||||||| || || ||||| ||||||| ||||||||||| || ||||| ||||||| | |||| ||||||||
-gtcgtaaggctatctggaatagtttttttttt--ctggattatgttttggttgaagcttggctttgacgagtttttgactgacagtctaccctgaaatacagGTCTACACTGTGGGTCCCGAATATGCACACGCTGAAGCAAGAAAATCACCTGTTGTTGATGGTGTAGTAATGAGAAATCCAGATGGGAAGGAA
upper sequence: PP1S70_284V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ19878 (Selaginella moellendorffii), 3'ss of exon 8
aaaaaaaattcgttgtggtggagttcgtagttgaatcgggaaataaccgtgtgcaagttcgcaagtgagagtgttcatgtgacaac-ctttgggcgtgcagGTGTACACAGTGGGACCAGAATATGCCCATGCAGAAGCTCGAAAATCTCCTGTTGTTGACGGGGTAGTTATGAGAAGTGCAGACGGGAAGGAG
|| ||| | ||| | || | | | | | ||| | ||||||| ||||| || |||||||||||||| ||||| || || |||||||| ||||||||||||||||| ||| |||||||| | || || || |||
------------------------------------------------gtagacaa---ctcaacttcttgttcttagcagccgcctcttctgaactgcagGTATACACTGTTGGACCAGAATATGCTCATGCTGAGGCACGAAAATCACCTGTTGTTGACGGGGTTGTTTTGAGAAGTCCCGATGGAAAAGAG
upper sequence: PP1S70_284V6.1 (Physcomitrella patens), 3'ss of exon 8
lower sequence: EFJ07403 (Selaginella moellendorffii), 3'ss of exon 8
aaaaaaaattcgttgtggtggagttcgtagttgaatcgggaaataaccgtgtgcaagttcgcaagtgagagtgttcatgtgacaacctttgggcgtgcagGTGTACACAGTGGGACCAGAATATGCCCATGCAGAAGCTCGAAAATCTCCTGTTGTTGACGGGGTAGTTATGAGAAGTGCAGACGGGAAGGAG
|| ||| | | | | || || | | | || | ||||||| ||||| || |||||||||||||| ||||| || || |||||||| ||||||||||||||||| ||| |||||||| | || || || |||
------------------------------------------------gtagacaactcaacttcttgttcttagca-gtcgcctcttctgaac-tgcagGTATACACTGTTGGACCAGAATATGCTCATGCTGAGGCACGAAAATCACCTGTTGTTGACGGGGTTGTTTTGAGAAGTCCTGATGGAAAAGAG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.accgtgtgcaagttcgcaagtgagagtgttcatgtgacaacctttgggcgtgcagGTGTACACAGTGGGACCAGAATATGCCCATGCAGAAGCTCGAAAATCTCCTGTTGTTGACGGGGTAGTTATGAGAAGTGCAGACGGGAAGGAG
aaataac putative branch site (score: 2)
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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
aaaaaaaattcgttgtggtggagttcgtagttgaatcgggaaataaccgtgtgcaagttcgcaagtgagagtgttcatgtgacaacctttgggcgtgcagGTGTACACAGTGGGACCAGAATATGCCCATGCAGAAGCTCGAAAATCTCCTGTTGTTGACGGGGTAGTTATGAGAAGTGCAGACGGGAAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAG