GgaINT1022145 @ galGal4
Intron Retention
Gene
ENSGALG00000007881 | PNPLA6
Description
patatin-like phospholipase domain containing 6 [Source:HGNC Symbol;Acc:HGNC:16268]
Coordinates
AADN03027100.1:4100-4615:-
Coord C1 exon
AADN03027100.1:4499-4615
Coord A exon
AADN03027100.1:4217-4498
Coord C2 exon
AADN03027100.1:4100-4216
Length
282 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGC
5' ss Score
7.16
3' ss Seq
ATTGTTCCCCGCCGGTGCAGGCT
3' ss Score
6.56
Exon sequences
Seq C1 exon
GCAGTCTTTGGCGTTACATCCGAGCCAGTGCCTCCTATACCCCCTACCTGCCTCCGCTCTGCGACCCCAAGGACAGCCACTGCCTCGTGGACGGCTGCTATGTTAACAATGTCCCAG
Seq A exon
GTCAGCATCTCCCTCTCCGGGGCCATCGGCCCCCTCCAGAAACGCTCCTTTTTTTTCCCTCAAGAAAACAAACAAACAAACAAACAAACAAACAAAAATCACACATATCCCATTCCAGGTGGAGCTTTGCAAACGGCCCCTCTGCCACCCATGGGTGCCCACTGGACCCCCGTGGGGTGCAGACATCCCTGGGCAAGGGCAGGGGTGAGGGGCAGCCCCCTGGGGGGCTCAGGCAGGCGCGGGGCAAGCCGTGCTCACTGCAATTGTTCCCCGCCGGTGCAG
Seq C2 exon
GCTCGCTCTGGCGGTACGTGCGAGCCAGCATGACCCTATCTGGGTACCTGCCACCCCTCTGCGACCCCAAGGACGGCAACTTGCTGATGGACGGGGGTTACATCAACAACCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007881:ENSGALT00000012800:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0173417=Patatin=FE(23.9=100),PF0173417=Patatin=PU(4.3=5.0)
A:
NA
C2:
PF0173417=Patatin=PD(0.1=0.0),PF0173417=Patatin=FE(84.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTTTGGCGTTACATCCGAGC
R:
TGGCAGGTTGTTGATGTAACCC
Band lengths:
229-511
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]