Sequence
atgc intronic sequence ATGC exonic sequence...cgcctcttcatgtgccttcgttcgcttctccagtctttgcagttagtttcgaagtagagattcaaactgtgcaatgtgatgcaatgttatgcaattgcagAACATGAAGCACATGAGCAAGCAGGTGCGGCACTTCATTCAAAAAATCACCAAGGTGGATCAGGACTACTACCCAGAGTGTTTGGGGAAGATGTTCATCG
Basic information
species | Physcomitrella patens |
transcript | PP1S99_179V6.1 |
intron # | 2 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S99_179V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ15090 (Selaginella moellendorffii), 3'ss of exon 2
cgcctcttcatgtgccttcgttcgcttctccagtctttgcagttagtttcgaagtagagattcaaac---tgtgcaatgtg-atgcaatgttatgcaattg-cagAACATGAAGCACATGAGCAAGCAGGTGCGGCACTTCATTCAAAAAATCACCAAGGTGGATCAGGACTACTACCCAGAGTGTTTGGGGAAGATGTTCATCG
|| | || || | || || | || || || | || | || | | || || | | | ||| | | | | || |||| ||||| |||||||||||||| || ||||| ||||| || || ||| |||| ||||| |||||||||||||| |||| |||| |||||||||||||
---------gtgagtgtttcttt-ccattctagaggatctagccaggatctaggtggtctatcgatcgcttgctcactcagcaaacaacgcttttgatctggcagACGATGAAACACATGAGCAAGCAAGTCCGGCATTTCATCCAGAACATCTCCAAAGTGGACCAGGACTACTACCCCGAGTTCCTGGGCAAGATGTTCATCG
upper sequence: PP1S99_179V6.1 (Physcomitrella patens), 3'ss of exon 2
lower sequence: EFJ37598 (Selaginella moellendorffii), 3'ss of exon 2
cgcctcttcatgtgccttcgttcgcttctccagtctttgcagttagtttcgaagtagagattcaaac---tgtgcaatgtg-atgcaatgttatgcaattg-cagAACATGAAGCACATGAGCAAGCAGGTGCGGCACTTCATTCAAAAAATCACCAAGGTGGATCAGGACTACTACCCAGAGTGTTTGGGGAAGATGTTCATCG
|| | || || | || || | || || || | || | || | | || || | | | ||| | | | | || |||| ||||| |||||||||||||| || ||||| ||||| || || ||| |||| ||||| |||||||||||||| |||| | |||| |||||||||||||
---------gtgagtgtttcttt-ccattctagaggatctagccaggatctaggtggtctatcgatcgcttgctcactcagcaaacaacgcttttgatctggcagACGATGAAACACATGAGCAAGCAAGTCCGGCATTTCATCCAGAACATCTCCAAAGTGGACCAGGACTACTACCCCGAGTTTCTGGGCAAGATGTTCATCG atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gtttcgaagtagagattcaaactgtgcaatgtgatgcaatgttatgcaattgcagAACATGAAGCACATGAGCAAGCAGGTGCGGCACTTCATTCAAAAAATCACCAAGGTGGATCAGGACTACTACCCAGAGTGTTTGGGGAAGATGTTCATCG
aatgttat 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
cgcctcttcatgtgccttcgttcgcttctccagtctttgcagttagtttcgaagtagagattcaaactgtgcaatgtgatgcaatgttatgcaattgcagAACATGAAGCACATGAGCAAGCAGGTGCGGCACTTCATTCAAAAAATCACCAAGGTGGATCAGGACTACTACCCAGAGTGTTTGGGGAAGATGTTCATCG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGTGGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGATG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - tgatgca