GgaINT0002397 @ galGal3
Intron Retention
Gene
ENSGALG00000022619 | ZNF541
Description
NA
Coordinates
chrUn_random:730341-730627:-
Coord C1 exon
chrUn_random:730552-730627
Coord A exon
chrUn_random:730430-730551
Coord C2 exon
chrUn_random:730341-730429
Length
122 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACG
5' ss Score
10.52
3' ss Seq
GAGTGCTGCTTCATCCCCAGGCT
3' ss Score
6.48
Exon sequences
Seq C1 exon
GACGCTCTGGAGCTGCTGCTGTTCGGATGGCCGCACAAATCCCAGTCCCATCCTCTCGCTAATTACCGCTACACAG
Seq A exon
GTAACGAGCTCAGAGCTGCCTTCCAAACGTCCCGGAGGGGAGAGGTGCAGAGGTGTGAGCAGTGACTGCCCTGAGCCGTTCCCGGCGTCGCACCGCAGTGCTGAGTGCTGCTTCATCCCCAG
Seq C2 exon
GCTCGGATGTGTGGACGCCCGTGGAGAGGCAGCTCTTCAGAAACGCCTTTCATGCCCACAAGAAGGATTTCTACCTGATCCAGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000022619:ENSGALT00000036197:10
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0024926=Myb_DNA-binding=PU(60.9=93.3)
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:
GCTGCTGCTGTTCGGATGG
R:
CTTCTTCTGGATCAGGTAGAAATCCT
Band lengths:
154-276
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]