GgaINT1009464 @ galGal4
Intron Retention
Gene
ENSGALG00000016565 | CHRNA2
Description
neuronal acetylcholine receptor subunit alpha-2 precursor [Source:RefSeq peptide;Acc:NP_990146]
Coordinates
chr3:104703515-104704881:-
Coord C1 exon
chr3:104704812-104704881
Coord A exon
chr3:104703670-104704811
Coord C2 exon
chr3:104703515-104703669
Length
1142 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCTGCTCCATGTCTCCACAGCCA
3' ss Score
10.14
Exon sequences
Seq C1 exon
GAAAGCATGGGGTGGCCATGCCGCAGCATCATACCCCTCCTCGTGTGGTGCTTTGTCACCCTCCAGGCAG
Seq A exon
GTAAGGGTTCTCCTTTCTTTCCCTGGGGTACCCGAATGCCCTGTCCTTTGGCCCAGCCTTCCCCTGGCTCCCAATCTCCCATCATAAGAGCTATAAGGAGCTGGGCGCCTTGCTTCTTCCCTCATCCAGCAGCACCCCTCCCCATACACCCTTCATTTCTGCTCAGTGCTCAATCCCCAGCAATACGCAAGGGAAAACCAGAGCCCCTCGCTGGGCTTGCCTGCCCCGAGCTGAGCAGTGGGGAGAGCTTGCACAGGGCACAGGGGATGTTCCAGCTGTAGAGCTGCACATCTGCCCTGCTGCTGGGCTCAGCCACATTTACAGTGCCTTTTTGGCTGCGCTTTGCTGTGTAAAGTGCTCCACAGAAGAAATTTATGGGGCTCCGCAGCAAGCAAGGACAGATACGAGCGATGCTGAGCGATGCAGCACAAGCACGTGGGCTGGCTGGTGGCACCAGAGAGCAATGCCAATGATTGCTCCACATAGCAAGGAGCTTCCATCCTCTATCTCCCATCCTCCACCCTCCATTCTTCATCTTCCATCCATCCTCCATCCTCCATCCTTCCTCCACCCTCCATCCTCCTTCCTTCAATCCCCATCCTCCAACCTCCCTCCTCCACCCTTCCATCTCCATCCTTCATCCTCCAGTTGAGCCCAATGGCTGCTCTCTTGGAAGTCTGCACTGGTCGCAAGCTCTGCACCAGCTGCTGCCTCCAGCTTGCAAAGCTCAGCCAATTTACACCAGTAAGAGCTGCTGGAGGGGGCTGTGAGGTGACCCTTGGCCATTCAGGAGCAGGATTTTCTCACCAACTTCCAAGCTAACATTGCCAAGCTGACCTTGCACCGCCTGTAGGGCATAGTTGCAGAGGCCAATTCCCTTCTTCCCACCTCCATGTCCAGAAATGTCCCTTTCACAAGTGGAGCAGAGGACCCCAAATCCTCATCCAGAGGATTTCTGCCCTCTCCCTCAAGCAGTGCTGAGATGGAGCAGTAAGGAGGCAGAGAGTGGAAAGCCCCACTGCAGGGGATGGGAGAAAGAGGGTGACATTTATAATTGCTTTTATTTTGGGGTGCCCTGTGATGTGCATGGTCCCTTTTCGGGTAATGCAAGAAAGCTCTGCACCTGCTCCATGTCTCCACAG
Seq C2 exon
CCACCCGGGAGCAGAAACAGCCCCATGGCTTTGCTGAGGACCGTCTCTTCAAGCATCTCTTCACTGGCTACAACCGGTGGTCACGGCCGGTGCCCAACACCTCCGATGTGGTCATAGTGAAGTTTGGGCTGTCCATAGCCCAGCTGATCGATGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016565:ENSGALT00000026738:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0293118=Neur_chan_LBD=PU(18.8=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAAGCATGGGGTGGCCATG
R:
ATCGATCAGCTGGGCTATGGA
Band lengths:
222-1364
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]