GgaINT1030609 @ galGal4
Intron Retention
Gene
ENSGALG00000022619 | ZNF541
Description
zinc finger protein 541 [Source:HGNC Symbol;Acc:HGNC:25294]
Coordinates
AADN03017309.1:1352-1820:-
Coord C1 exon
AADN03017309.1:1680-1820
Coord A exon
AADN03017309.1:1516-1679
Coord C2 exon
AADN03017309.1:1352-1515
Length
164 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGAA
5' ss Score
6.33
3' ss Seq
CTCTGCTGTCTGACCTGCAGCCC
3' ss Score
9.26
Exon sequences
Seq C1 exon
GTCCAGACGAAGAACGTGTCCCAGTGCGTCGAGTACTACTACATCTGGAAAAAGATCATCAAGTTCGACCACAGCCGAGCTCAGAACGCGGACAAAAAGGCCAAGAGGGACAGCAGTGAGGCAGAGGAGGCCGAGGAAAAG
Seq A exon
GTAGAAAACTGCTGTGCGTTTTGCTGAGCTCCTCCTGCAGCGTCTTCGGAGCGAAGCGCTGCTCCTTGGCACAGCGGGCATTTCCTCCCTGGCTTTCCCCCCCCACACACTGCCCCTCGGCCCTCCCACAGGCACAGAGCTAACCTCTGCTGTCTGACCTGCAG
Seq C2 exon
CCCCTCTGCCCCCCGAAGAAGAGGCACTGCCTTCTGCCCAAGGAGAGCAGCAAGAAGAGCTGCAGGAAGGCACCCCACGGTGCGGGCAGCCCCTCCTGCAGTGTGGGCCGAGCTCCCGGCGGCGTGGAGCATCACAACGTGTTCCCCTGCACCGAGTGTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022619:ENSGALT00000036197:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.447 A=NA C2=0.364
Domain overlap (PFAM):
C1:
PF0024926=Myb_DNA-binding=PD(34.8=34.0)
A:
NA
C2:
NO
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:
TCATCAAGTTCGACCACAGCC
R:
ACTCGGTGCAGGGGAACA
Band lengths:
243-407
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]