BtaINT0038380 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019242 | CHRNB1
Description
Bos taurus cholinergic receptor, nicotinic, beta 1 (muscle) (CHRNB1), mRNA. [Source:RefSeq mRNA;Acc:NM_174516]
Coordinates
chr19:27763139-27764033:+
Coord C1 exon
chr19:27763139-27763362
Coord A exon
chr19:27763363-27763851
Coord C2 exon
chr19:27763852-27764033
Length
489 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CCTGTTCATCTACTCTGCAGATC
3' ss Score
9.2
Exon sequences
Seq C1 exon
GAGAGAAGATGGGGCTCTCCATCTTTGCCCTGTTGACCCTCACTGTGTTCCTGCTGCTGCTGGCAGACAAAGTACCTGAGACCTCCCTGTCTGTCCCCATCATTATCAAGTACCTCATGTTCACCATGGTCCTCGTCACCTTCTCAGTCATCCTTAGTGTTGTGGTCCTCAACTTGCACCATCGCTCACCCCACACCCACCAAATGCCCCTTTGGGTTCGTCAG
Seq A exon
GTAAGAAGACCTCCTCCTTCAACCTGTGTTAACTCTCAATCCTAGTATTTGGATTTTTGTCCAGGCTTCACTCCTCTCTCCCATCAGCTTCAACCTTCCCTTTCACAGACCCAAGGGAGACTACAACTTCAACTCCTGGTTGAGTGTCCGAGTGCCAGGGTCTTTGGGTGTTGAAATGTTGCACAATTAATTTTATCCTCACATTATTAACTCTGTGTGGATTCCAGACTCTCTTCATCAATACTGCCCTTTGTGGGGTGGGTCCCATGGAAGCATTCCAAGGGCTAGGTACTTACTATCAGGGTGGGAGCCCTTAGAACTTTTCTTTCCAGTCAGGATGTCTCCTAACCCACTTAAGAACTCTGGGCCCTGTGAGACTCAGGCACGCTTGGCAGGAGTGGGCACGTACCAGGGGGGTGGGTTGTGGCTTCTCTTCTGGTCTCAAGGCCTGAGAACCCCCTCCAACATGCCTGTTCATCTACTCTGCAG
Seq C2 exon
ATCTTTATCCACAAACTCCCTCTGTACCTGGGTCTGAAGAGGCCCAAACCTGAGAGAGACCAGATGCAGGAGCCACCTTCCATAGCTCCCAGGGATTCTCCAGGAAGTGGCTGGGGTCGGGGAACAGATGAATATTTCATCCGCAAGCCACCAAATGATTTTCTCTTCCCCAAACCCAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019242:ENSBTAT00000025624:8
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=0.279
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(31.0=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(25.1=100)
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:
CTCACTGTGTTCCTGCTGCTG
R:
ATCATTTGGTGGCTTGCGGAT
Band lengths:
345-834
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development