GgaINT0022727 @ galGal4
Intron Retention
Gene
ENSGALG00000002486 | RNF123
Description
ring finger protein 123 [Source:HGNC Symbol;Acc:HGNC:21148]
Coordinates
chr12:2382433-2382793:+
Coord C1 exon
chr12:2382433-2382575
Coord A exon
chr12:2382576-2382698
Coord C2 exon
chr12:2382699-2382793
Length
123 bp
Sequences
Splice sites
5' ss Seq
CGTGTGAGT
5' ss Score
7.42
3' ss Seq
TTCTGGTTCTGTCCCCGCAGACA
3' ss Score
11.56
Exon sequences
Seq C1 exon
GGCTGAGCGTGCGACAGCGGTGCTGCTGGCGGACCCCTGCTTCCAGCTGCGCTCCATCCAGTACCTGCTGGGACACGCCGAACCTGCAGCCATGGCAGCAGCTGCTGCGGCCACAGAGAAACGCCACTTCTCCCTGAGCACGT
Seq A exon
GTGAGTGTTGCACAGGGCTGGGGCAGGGGGCTGCTGGCCCTGGGGGCAGCACTGGGCATGAAGCAGCCCCAGCAATGGGCAACCACTCAGCACACACATACGATTCTGGTTCTGTCCCCGCAG
Seq C2 exon
ACACGGAGTACATCAGTGCCGAGGAGCTGTCCAAGGTGGACACGATGCTGAGCCACCTGAGTGAGGAGTCCAAGCAGGCGGCTGCCACCACACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002486:ENSGALT00000003917:35
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=0.125
Domain overlap (PFAM):
C1:
PF042167=FdhE=FE(24.5=100)
A:
NA
C2:
PF042167=FdhE=FE(15.8=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:
CTGGCGGACCCCTGCTTC
R:
TGCTTGGACTCCTCACTCAGG
Band lengths:
194-317
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]