Sequence
atgc intronic sequence ATGC exonic sequencegtgagtgctatatatcctgtgaaagttaagtgttgtgattattcatatgtttaaatccactgtttagcacaatacattagagtaacatacaatgaatgctatatttaacatacaattttttccgtagGATATTCGCTTCAGAGGCATGTCAATACCTGAATGTCAGAAAAAACTTCCAGAAGTGAAACCTGGTGGCAAACCATTGCCTGAAGGCTTTTTGTGGCTCC
Basic information
species | Physcomitrella patens |
transcript | PP1S56_197V6.1 |
intron # | 4 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S56_197V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA15G42300.1 (Glycine max), 3'ss of exon 6
---------------------------gtgagtgctatatatcctgtgaaagttaagtg--------ttgtgattattcatat--gttta---aatccactgtttagcac-----aatacat-tagagtaacatacaatgaatg-----ctatatttaacatacaattttttccgtagGATATTCGCTTCAGAGGCATGTCAATACCTGAATGTCAGAAAAAACTTCCAGAAGTGAAACCTGGTGGCAAACCATTGCCTGAAGGCTTTTTGTGGCTCC
| || | | | || | ||||| || | || ||| |||| ||| || | |||| | ||||| ||| | || || | || || || | | ||| || | || |||| |||||||| || ||||||||||| |||||||| |||||||| ||||||| | ||||||| | || || ||||| | | ||||||| |
gtatataaattaactcagtcttcacttttcagatatttgtgaactatcaaagtgaattaactcttgcttatgactatttttattaattgagagaatctctgatgtagcatctgttaatgtttactgattagttattactggatagatctctgagatcagcatgttatgtctt--atagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCAGGTGCTTTTACTGGTGGGGAGCCTTTACCTGAGGCTGTACTGTGGCTTC
upper sequence: PP1S56_197V6.1 (Physcomitrella patens), 3'ss of exon 4
lower sequence: GLYMA08G16770.1 (Glycine max), 3'ss of exon 6
---------------------------gtgagtgctatatatcctgtgaa---agttaagtgttg----tgattattcatatgtttaaatccactgtttagcacaatacat-tagagtaacatacaatgaatg-----ctatatttaacatacaattttttccgtagGATATTCGCTTCAGAGGCATGTCAATACCTGAATGTCAGAAAAAACTTCCAGAAGTGAAACCTGGTGGCAAACCATTGCCTGAAGGCTTTTTGTGGCTCC
| || | | | | || | |||| | ||| ||| |||| || | || | | | | | | | ||| || | |||||| || | | ||| | | || |||| |||||||| || ||||||||||| |||||||| |||||||| ||||||| | |||||||| | || |||||||| | | ||||||| |
gtatataaattaactcagtcttcacttttcagatttttgtgactatcaaagtgaattaactcttgcttatgactattttgattaattgatagaatctctgatgtagcttttgtttgttaatatttactgaatggatctctgagatcagcatgttacgtctt--atagGGAATTCGCTTTAGGGGCATGTCAATTCCTGAATGCCAGAAAAAGCTTCCAGGTGCTTTTCCTGGTGGGGAGCCTTTGCCTGAGGCTGTACTGTGGCTTC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tacattagagtaacatacaatgaatgctatatttaacatacaattttttccgtagGATATTCGCTTCAGAGGCATGTCAATACCTGAATGTCAGAAAAAACTTCCAGAAGTGAAACCTGGTGGCAAACCATTGCCTGAAGGCTTTTTGTGGCTCC
ttttttccgt CT-rich tract
aatgctatatttaaca 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagtgctatatatcctgtgaaagttaagtgttgtgattattcatatgtttaaatccactgtttagcacaatacattagagtaacatacaatgaatgctatatttaacatacaattttttccgtagGATATTCGCTTCAGAGGCATGTCAATACCTGAATGTCAGAAAAAACTTCCAGAAGTGAAACCTGGTGGCAAACCATTGCCTGAAGGCTTTTTGTGGCTCC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGAAGT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGTGG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - CTGAAG