BtaINT0038378 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019242 | CHRNB1
Description
Bos taurus cholinergic receptor, nicotinic, beta 1 (muscle) (CHRNB1), mRNA. [Source:RefSeq mRNA;Acc:NM_174516]
Coordinates
chr19:27759274-27760085:+
Coord C1 exon
chr19:27759274-27759421
Coord A exon
chr19:27759422-27759875
Coord C2 exon
chr19:27759876-27760085
Length
454 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGT
5' ss Score
9.27
3' ss Seq
TCCCCCCTCACCCCACCAAGAGA
3' ss Score
1.92
Exon sequences
Seq C1 exon
GTCACCTACTTCCCCTTTGACTGGCAGAACTGCACCATGGTGTTCAGTTCCTATAGCTATGACAGCTCAGAGGTCAGCCTGCAAACTGGCTTGAGTCCTGAGGGGCAGGAGCGGCAGGAAGTGTATATTCATGAAGGGACCTTTATTG
Seq A exon
GTGAGTGGGCATGACTTCCACATCCATGGGCTTTATGATTTCCAGTTTCTAACAGGCTGATAAACATAATCCATCAACAAGTCCCTGTGAGGTCAGCAAGATAGATATAACTATCTATATTTTGTGGGTATGGAAATTGAGACTCGTTCAAATAGAGATGGGCTGTCCAGCCCAGGGTCCATAGCTAGCCCCTTATTGCCCCTTATTACATAGGTCTCCTCTGCTCTAGGATGTGGTGGAGAAAGCCATATCTGGGAATTTCCTGGCAATCTAGTAGTTAGGACTCTGTGATTTCACTGCTGAGGGCCTGGGTTCAATCCCTGGCTGGGGAACTATGACAAGCAGCATGGAGCAGCCAAAAGAAAAAGAAAGAAAAAAAAAAAGCCATATCTGGCACCAACAAAGACATGTCTCATATCTGTCACCTTCTCTTCTCCCCCCTCACCCCACCAAG
Seq C2 exon
AGAATGGCCAATGGGAGATTATCCACAAGCCTTCTCGGCTAATTCAGCCTTCAGTGGATCCTAGGGGAGGCGGGGAAGGACGACGTGAAGAAGTCACCTTCTACCTCATCATTCGCCGGAAGCCTCTCTTTTACCTGGTCAACGTCATTGCCCCATGCATCCTCATCACTCTCCTGGCCATCTTTGTCTTCTACCTGCCACCGGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019242:ENSBTAT00000025624:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.060 A=NA C2=0.070
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(22.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(18.7=57.7),PF0293211=Neur_chan_memb=PU(81.5=31.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCTTTGACTGGCAGAACTG
R:
CATCCGGTGGCAGGTAGAAGA
Band lengths:
344-798
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development