BtaINT0038402 @ bosTau6
Intron Retention
Gene
ENSBTAG00000011390 | CHRND
Description
Bos taurus cholinergic receptor, nicotinic, delta (CHRND), mRNA. [Source:RefSeq mRNA;Acc:NM_174271]
Coordinates
chr2:120975940-120976617:+
Coord C1 exon
chr2:120975940-120975984
Coord A exon
chr2:120975985-120976507
Coord C2 exon
chr2:120976508-120976617
Length
523 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CATTCCTTTTGGGCTTCCAGGGC
3' ss Score
8.16
Exon sequences
Seq C1 exon
AAAGAAGTCGAAGAGACCCTCACCACGAATGTGTGGATCGAGCAG
Seq A exon
GTAAGGAGAACACCCCACACAGAGCCAGCGGGTGGGAGAGAGGATGCAGGGCCCAAATTCCCCTGTGCTTGCTTCTGCTGGGGGATTCCCAGCTTGCTTCAGACACTGTCCTCCAGGACAGACTGGCCCTTGCCTCCCAAGAAACCCCAGACCCAATTGCCCTCACCAGCTACTGCCACCACAGCCCAGATAGAGCCTTAGGTGAATTAGGATCTTCATCTCAGGGAACACTGTCACAGAGGCTTGATTTTATTAGAAGACACTGTCTGCTACCTGTCAGTCGGTCTCCTATGTCCACTATGGAAACAGTCCTCCCTTAGTTGTGCAGTGCACATCCTATACAGCTGTACATGACAGACCTGAGTCCCGCTCTGTACCCATCTCCCCCAACCTCTTTTGTCCCAGCCCCAGATCCTGTCGAGTCTCCCCGGCCAGGGAAGTGGTCGGCACAGGGTGTAGGGGGGGAGTGGGGGACCCCAGACAACAGCAGAGCCCACTGCTGACATTCCTTTTGGGCTTCCAG
Seq C2 exon
GGCTGGACAGACAGCCGGCTGCAGTGGGATGCAGAAGACTTTGGGAACATCAGCGTCCTGCGTCTGCCCGCTGACATGGTGTGGCTCCCAGAGATTGTGCTGGAGAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000011390:ENSBTAT00000015135:3
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(6.3=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(16.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]