GgaINT0046843 @ galGal4
Intron Retention
Gene
ENSGALG00000009301 | CHRNA1
Description
Acetylcholine receptor subunit alpha [Source:UniProtKB/Swiss-Prot;Acc:P09479]
Coordinates
chr7:16307700-16309198:+
Coord C1 exon
chr7:16307700-16307937
Coord A exon
chr7:16307938-16308974
Coord C2 exon
chr7:16308975-16309198
Length
1037 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
GTCTTCTTTTTGCATTGCAGGTG
3' ss Score
11.77
Exon sequences
Seq C1 exon
GAGAGCGATCGCCCCGACCTGAGTAACTTCATGGAGAGCGGTGAGTGGGTGATGAAGGACTACCGTGGCTGGAAGCACTGGGTTTACTACGCCTGCTGCCCTGACACCCCCTACCTGGACATCACATACCACTTCCTCATGCAGCGCCTGCCTCTCTACTTCATCGTCAACGTCATCATCCCCTGCCTGCTCTTCTCCTTTCTGACCGGGTTTGTTTTTTATCTACCCACAGATTCAG
Seq A exon
GTATGTGAGTTTAGTCGTTCTACTGCCATAGTAATTGCTCTTCTAATAAGCCCTTGAGAAATTCTGAGCACTTGAAGTCAGCGGCACACTTGAAGGGCCGCACGTGCTAAACTGGTGCTTCAGCTCAAAACAACAGCTCTAAACATTCTGCAAATTAAGCTGAAACTATTCATGTAGACAAACTGCGTGGATTTCCCATGGAAAACACTGGTTAACTATTCAGTTGTCTTCTGCAAAGCAAAGATTTGGCTAGCTGATGTTCTGATTTTGTCCCTCAGGCCAAAATGTTTGTATGGCAGACAGTACCTGAGCACACTGTTGGAGCAGAGACCTTGTGGTCTGCGCACGCTTGCGGGCTCATTGACACAGAGTAATTCTGGCCTCCTCTGGCCTGTTTCATCTCTGCTGAGAAGCTCTGCTGCAGAAAGCTTGTGCTCCCTGCAACCATTTCCCACGCTTTATTCATTTTACTTGGCATCAGCTTCTCACCCCGCTTAATTGCACTGAGCCCCTTCTGTAGAAGACCTCTGATGCACAGCTTTTTGGTGGAGAGCTTTACATGAAGTTGAAGCGGATAGAAAAAGGCTGTGCGAATCACGCCTTGCGGTTCGGTTCTGACATCCTACCTACTGAAAGCTGATCCCTGGCGCCAGATGCACTTTTTGTCAGCTCGCGCTGTGCTGAGGCAGCCAGCCCCAAGAGGCTACAGAGCCATTAACCAGGTGCATGCACCTCATCAATCAAATCCCACTATCCACAGGGTGCTCCTGGCAAAGAAGCTTTCCACACACACCACCTACACCTCAGTCCACTCATACCTGATGATTTCCACCCCAGTGCTGGTGTTGGTGCTTTGTGAGGTGCTCAGGTCTTGCCAGGTTCATTATCGTTTTGGGAGCTATAGAGACAGTAGCACTCTGGATTCATGAAAATGTATGTGTGTGAATAGCCATCGTCCACACGCAAGCTTTTCAAACTGCTTAAGCACTGAACGATATCGACATATCCAGTGGTATTGTCTTCTTTTTGCATTGCAG
Seq C2 exon
GTGAGAAAATGACCCTCAGCATCTCTGTCTTGCTGTCACTGACTGTGTTCCTGCTGGTCATCGTGGAGCTGATTCCCTCTACCTCCAGCGCAGTGCCTCTGATAGGCAAATACATGTTGTTTACCATGGTGTTTGTCATCGCTTCCATCATCATCACCGTCATCGTCATCAACACCCACCACCGCTCCCCCAGCACTCACACCATGCCGCCCTGGGTCAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009301:ENSGALT00000015138:6
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=0.027
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(24.0=62.5),PF0293211=Neur_chan_memb=PU(21.0=27.5)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(70.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGAAGGACTACCGTGGCT
R:
ACGGTGATGATGATGGAAGCG
Band lengths:
349-1386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]