GgaINT1009463 @ galGal4
Intron Retention
Gene
ENSGALG00000022702 | CHRNA10
Description
neuronal acetylcholine receptor subunit alpha-10 precursor [Source:RefSeq peptide;Acc:NP_001094506]
Coordinates
chr1:193908878-193910145:+
Coord C1 exon
chr1:193908878-193909032
Coord A exon
chr1:193909033-193909612
Coord C2 exon
chr1:193909613-193910145
Length
580 bp
Sequences
Splice sites
5' ss Seq
CAAGTGGGT
5' ss Score
4.82
3' ss Seq
CCCTGGCCATCCCTGCCCAGCGC
3' ss Score
6.26
Exon sequences
Seq C1 exon
GATGAGCGGAACCAGGTGCTCACCTCCTACCTGTGGGTCCGCCAGGCCTGGCTGGATGCCCACCTGGCCTGGGATAAGGACGCCTACGGTGGCATCGACAGCATCCGCATCCCCAGCAGCTACGTCTGGAGGCCAGACATCGTCCTCTACAACAA
Seq A exon
GTGGGTCAATGCTCACCCCAACCAGGGGGATGTAGGGGGGCAGTGCAGGGTGGGGTGAAACCAGCGGTCCTGGTGCAGGGAGGGTGGGGAGCTGTCACCTGTGCTGGGGGAACACCACAGGGACACGCCAAGGGACGTGGTTGGGTCGTTGTGGTGTGTTGTAGGGGGATGTAGCATGGGGATGTGCAGGGGACGTGGCACAGTGATGTAGCATGGGGATGCAGCGGGCACGTGGCATGGGGACATGGTGGGGACATGGCATGGGGACTTGATGGGGATGTGGCATGTAGACATGGCATGGAGATATACTGGGGAAGTGGCACGGGGACAGGATGGGGACGTGACATGGGGACATGGCATGGGGACATGGTGGGGACATAGCATGGGGATGTGGCATGGGGATGTAATGAGGAAATGGCACGGTGATGTAGCATGGGGATGCAGTGAGCATGTGGCATGGGGATGTGGTGGGGACATGGCGTGGAGGCGCACACTGGTGCCAGCCCGCAGCCCCTCACTCCAGTGGGGTTGGGGTGACTGTGGCCGCCCTCCCCCATCCCCCCTGGCCATCCCTGCCCAG
Seq C2 exon
CGCCGATGAGCGTTTTGGTGGCTCCATGGAGACCAATGTGGTGCTGCGCTCCGACGGACACATCATGTGGGACAGTCCGGCCATCACCAAGAGCTCCTGCAAGGTGGACGTCTCCTACTTCCCCTTCGACGGGCAGCAGTGCCGCCTCACCTTTGGCTCCTGGACCTACAATGGGAATCAGATCGACCTCCGCAACCTCCTGGACACGGGCGACCTGACCGACTTCGTGGAGAACGTGGAGTGGGAGGTGCTGGGCATGCCGGCCACGCGCAACGTGGTCACCTACGGCTGCTGCTCGGAGCCCTACCCCGACGTCACCTACATGCTGCTGCTCCGCCGCCGCGCCTCCTTCTACATCTTCAACCTGCTGCTGCCCTGCGTCATGATCTCCTTCCTGGCGCCGCTGGGCTTCTACCTGCCTGCTGACTCCGGGGAGAAGGTGTCCCTGGGGGTGACGGTGCTGCTGGCGCTCACCGTGTTCCAGCTGCTGGTGGCAGAGAGCATGCCGCCCTCGGAGAGCGTGCCGCTCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022702:ENSGALT00000022103:3
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(24.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=64.2),PF0293211=Neur_chan_memb=PU(45.5=31.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCCAGACATCGTCCTCTAC
R:
ATGTAGGTGACGTCGGGGTAG
Band lengths:
350-930
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]