HsaINT0141257 @ hg19
Intron Retention
Gene
ENSG00000164068 | RNF123
Description
ring finger protein 123 [Source:HGNC Symbol;Acc:21148]
Coordinates
chr3:49757944-49758327:+
Coord C1 exon
chr3:49757944-49758086
Coord A exon
chr3:49758087-49758232
Coord C2 exon
chr3:49758233-49758327
Length
146 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
CACTACCTACCACTCCCCAGATG
3' ss Score
5.93
Exon sequences
Seq C1 exon
GAGAGAGCAAGCCACATCAGTGCTCCTGGCAGATCCCTGCTTCCAGCTACGCTCAATATGCTATCTCCTGGGACAGCCAGAGCCCCCAGCACCTGGCACTGCTCTGCCAGCCCCTGACCGGAAGCGCTTCTCCCTGCAGAGCT
Seq A exon
GTGAGTGGGCTGGTGGGGCAGGTCAGGGAAATCTGGGGCTGGGTCGGGTCAGGAGCCTTAAGAACAGCAAAGTCCTAGGCTGGGAATATTCAAGAGGCATCACATCCTCAGCTACCTCTGACTTGACACTACCTACCACTCCCCAG
Seq C2 exon
ATGCGGATTATATCAGTGCCGATGAGCTGGCCCAAGTGGAACAGATGCTGGCGCACCTGACCTCTGCATCTGCCCAGGCAGCAGCTGCCTCCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164068-RNF123:NM_022064:36
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.143 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF042167=FdhE=PU(23.9=53.1)
A:
NA
C2:
PF042167=FdhE=FE(28.4=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
AGAGAGCAAGCCACATCAGTG
R:
CTGGGCAGATGCAGAGGTCAG
Band lengths:
219-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)