BtaINT0038415 @ bosTau6
Intron Retention
Gene
ENSBTAG00000004908 | CHRNE
Description
Bos taurus cholinergic receptor, nicotinic, epsilon (muscle) (CHRNE), mRNA. [Source:RefSeq mRNA;Acc:NM_174272]
Coordinates
chr19:27119512-27120067:+
Coord C1 exon
chr19:27119512-27119667
Coord A exon
chr19:27119668-27119966
Coord C2 exon
chr19:27119967-27120067
Length
299 bp
Sequences
Splice sites
5' ss Seq
CCGGTGGGA
5' ss Score
5.27
3' ss Seq
TTGGGATCCTGGCTCCGCAGCTC
3' ss Score
4.07
Exon sequences
Seq C1 exon
TATCGACGGCCAGTTCGGGGTGGCCTACGAGGCCAATGTGCTGGTCTCTGAGGGCGGCTACTTGAGCTGGTTGCCCCCGGCCATCTACCGCAGTACCTGCGCCGTGGAGGTCACCTACTTCCCTTTCGACTGGCAGAACTGCTCGCTCGTTTTCCG
Seq A exon
GTGGGAAGACTTACTTGTTCGCAGGCCCGGACAATTGAGGGATTAAGGGGTGGGGTCAGGTGCGCGGGGGCGGGGAGACCTCTAATCCGGGGCGGGGCCTTGTGCTGGAGGTGGGGCTAGGCATTCGAAGGCGATAGCGCGCTCTAGTGGATGAGAAGTAGGGGTGGAAACCCAGGCTTGGAGGCGGGGCTTGGTGATCGGGCGGAGCGTAATTCCCCGGCCAGAACCCGGCTTCCAGGGCGGGGCCTGAGGCCCGGGTCCCAGCCTCTGGGGTCGGGGTTGGGATCCTGGCTCCGCAG
Seq C2 exon
CTCCCAGACGTACAATGCCGAAGAGGTGGAGTTTGTCTTTGCGGTGGACGACGAGGGCAAGACCATCAGCAAGATCGATATCGATACTGAGGCCTATACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000004908:ENSBTAT00000045415:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(24.0=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(15.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATCGACGGCCAGTTCGGG
R:
CAGTATAGGCCTCAGTATCGATATCG
Band lengths:
257-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]