GgaINT0022728 @ galGal4
Intron Retention
Gene
ENSGALG00000002486 | RNF123
Description
ring finger protein 123 [Source:HGNC Symbol;Acc:HGNC:21148]
Coordinates
chr12:2382699-2383001:+
Coord C1 exon
chr12:2382699-2382793
Coord A exon
chr12:2382794-2382915
Coord C2 exon
chr12:2382916-2383001
Length
122 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CACCCACCTGTCCCCCACAGCCC
3' ss Score
9.21
Exon sequences
Seq C1 exon
ACACGGAGTACATCAGTGCCGAGGAGCTGTCCAAGGTGGACACGATGCTGAGCCACCTGAGTGAGGAGTCCAAGCAGGCGGCTGCCACCACACTG
Seq A exon
GTGAGTGTCCTCCGTTCCCATCCCCACGCACGGCTCTGCTGCTCCGGACTCGGCTGCAGCCCTGGCATCAGCTGCCCCCCAGCTGCGTGTGCCTCTGCCAACCACCCACCTGTCCCCCACAG
Seq C2 exon
CCCACCAGCGAGGAGGACCTGTGCCCCATCTGCTACGCACACCCCATCTCTGCCATCTTCCGGCCCTGCTCCCACAAGTCCTGCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002486:ENSGALT00000003917:36
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF042167=FdhE=FE(15.8=100)
A:
NA
C2:
PF042167=FdhE=FE(14.3=100),PF139201=zf-C3HC4_3=PU(51.0=86.2)
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:
ACGGAGTACATCAGTGCCGAG
R:
TTGCAGGACTTGTGGGAGCAG
Band lengths:
179-301
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]