Sequence
atgc intronic sequence ATGC exonic sequence...gggtcagtataattgaagccagttcgcgcattaaattgggatcgggagaacaagtttcccatgttgaaaaagggagtttctttattgcggtttgtggcagGTGGGTTCCCATGAGTTGAACAAAGACAGCAGCCGAAGCCACTGTATAATGACGCTTCATGTGGACTCATTGTGCCAAGTCGGCGATGATGCCCCTCCCA
Basic information
species | Physcomitrella patens |
transcript | PP1S98_144V6.1 |
intron # | 6 |
splice site | 3' |
intron type | U2 |
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: PP1S98_144V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ32292 (Selaginella moellendorffii), 3'ss of exon 3
gggtcagtataattgaagccagttcgcgcattaaattgggatcgggagaacaagtttcccatgttgaaaaagggagtttcttta--ttgcggtttgtggcagGTGGGTTCCCATGAGTTGAACAAAGACAGCAGCCGAAGCCACTGTATAATGACGCTTCATGTGGACTCATTGTGCCAAGTCGGCGATGATGCCCCTCCCA
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-----------------------------------------gtggctttccagtttctttgtttctttcaactgtctaacgttagattgctgttt---gcagATGGGAACGCACAATCTAAACAAGGACAGCAGCAGAAGTCACTGTATCATGACGCTTCATGTCGATTCTCTGTGCCATATGGACGCTGGCCCGCCTGTTA
upper sequence: PP1S98_144V6.1 (Physcomitrella patens), 3'ss of exon 6
lower sequence: EFJ20965 (Selaginella moellendorffii), 3'ss of exon 3
gggtcagtataattgaagccagttcgcgcattaaattgggatcgggagaacaagtttcccatgttgaaaaagggagtttcttta--ttgcggtttgtggcagGTGGGTTCCCATGAGTTGAACAAAGACAGCAGCCGAAGCCACTGTATAATGACGCTTCATGTGGACTCATTGTGCCAAGTCGGCGATGATGCCCCTCCCA
|| || || | | || | | | ||| |||| |||| |||| |||| | || | | ||||| ||||||||| |||| |||||||| |||||||||||||| || || ||||||| | | ||||| | ||| |
-----------------------------------------gtggctttccagtttctttgtttctttcaactgtctaacgttagattgctgttt---gcagATGGGAACGCACAATCTAAACAAGGACAGCAGCAGAAGTCACTGTATCATGACGCTTCATGTCGATTCTCTGTGCCATATGGACGATGGCCCGCCTGTTA atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.gagaacaagtttcccatgttgaaaaagggagtttctttattgcggtttgtggcagGTGGGTTCCCATGAGTTGAACAAAGACAGCAGCCGAAGCCACTGTATAATGACGCTTCATGTGGACTCATTGTGCCAAGTCGGCGATGATGCCCCTCCCA
tttctttatt 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
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gggtcagtataattgaagccagttcgcgcattaaattgggatcgggagaacaagtttcccatgttgaaaaagggagtttctttattgcggtttgtggcagGTGGGTTCCCATGAGTTGAACAAAGACAGCAGCCGAAGCCACTGTATAATGACGCTTCATGTGGACTCATTGTGCCAAGTCGGCGATGATGCCCCTCCCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -tgttgaa