GgaINT0065213 @ galGal4
Intron Retention
Gene
ENSGALG00000015382 | CHRNA6
Description
neuronal acetylcholine receptor subunit alpha-6 precursor [Source:RefSeq peptide;Acc:NP_990695]
Coordinates
chrZ:53430592-53431809:+
Coord C1 exon
chrZ:53430592-53430701
Coord A exon
chrZ:53430702-53430821
Coord C2 exon
chrZ:53430822-53431809
Length
120 bp
Sequences
Splice sites
5' ss Seq
TAAGTATGA
5' ss Score
1.43
3' ss Seq
TGCCTCATTTGTCTTTCTAGTGC
3' ss Score
9.15
Exon sequences
Seq C1 exon
ATCTGGAATGACTACAAATTGCGATGGGATCCCAGAGAATATGATGGAATTGAATTTGTTCGGGTACCAGCAGATAAAATTTGGAAACCAGATATTGTCTTATACAATAA
Seq A exon
GTATGAAGAACATTTTTCCATTTTACCCTTTCTCTGAAAAGTATCATCTTGCTGTATCCATGAAACACATTATTTTCCTCTCATAGCATTTTCTTCTCCTTGCCTCATTTGTCTTTCTAG
Seq C2 exon
TGCTGTGGGAGATTTTCAAGTTGAAGGCAAGACCAAAGCCCTTCTTCGCTACGATGGGATGATCACCTGGACCCCACCAGCTATATTTAAAAGCTCCTGTCCCATGGATATTACTTTTTTCCCATTTGATCATCAGAACTGTTCATTGAAATTTGGTTCTTGGACTTACGACAAAGCCAAAATTGATCTTCTGATCATTGGCTCCAAAGTAGATATGAATGAGTTTTGGGAAAATAGCGAGTGGGAAATAGTTGATGCTTCTGGCTACAAACATGACATCAAATATAACTGCTGTGAAGAGATCTACACAGATATAACATATTCATTTTATATTCGAAGGCTGCCAATGTTCTACACCATAAATCTGATTATTCCCTGTCTCTTCATCTCATTCCTGACTGTGCTAGTTTTTTACCTGCCATCTGACTGTGGTGAGAAGGTGACTCTTTGCATCTCTGTGTTGCTTTCTTTGACTGTATTTTTACTAGTGATCACAGAAACAATTCCATCTACCTCTTTAGTAATACCCCTCGTAGGTGAATATTTGCTCTTCACTATGATATTTGTGACTCTCTCCATTGTCATCACCGTGTTTGTCTTAAATATACATTACAGAACTCCTACTACACACACAATGCCCAAATGGGTGAAAACTGTCTTTCTTAGCCTGCTCCCCAAAGTTCTGTTGATGCAGCGGCCTCTGGAGCAGGAGAAAAAAAACATCTCCAAAAAGACCAAGAAAGGATCGGCCAAAACATCAGGCAAATCAAAGCACAGCAAACACAAAGATAACAAATTACATAAGGAGCAACGGTGTTGTCACTGTGATAAAGCAGACGATCTCACCTCAACCAGAAGAAGTCAACTGAGTCATCAGTCACTGAAATGGATGGCAGAGCACACAGAGTACTCCCCAGAAGTGAAAGATGTCATCAACAATGTTCAGTTCATCGCAGAGAACATGAAGTCTCAGAATGAAACCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015382:ENSGALT00000037792:4
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=0.079
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=34.8),PF103294=DUF2417=WD(100=48.5),PF0293211=Neur_chan_memb=PU(86.2=62.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGGAATTGAATTTGTTCGGGT
R:
TGGCTTTGTCGTAAGTCCAAGA
Band lengths:
248-368
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]