HsaINT0141229 @ hg19
Intron Retention
Gene
ENSG00000164068 | RNF123
Description
ring finger protein 123 [Source:HGNC Symbol;Acc:21148]
Coordinates
chr3:49736413-49737015:+
Coord C1 exon
chr3:49736413-49736538
Coord A exon
chr3:49736539-49736900
Coord C2 exon
chr3:49736901-49737015
Length
362 bp
Sequences
Splice sites
5' ss Seq
GCGATATCA
5' ss Score
-5.21
3' ss Seq
TGCTGGCTTAACTCTGGCACCTA
3' ss Score
-4.36
Exon sequences
Seq C1 exon
GAACGGTGTATCACTGGGCACTGCCTTTGAGAACCTGTCCAGGGGCCTGGGTATGGCCTACTTCCCAGCCATCAGCCTCTCTTTCAAGGAGTCCGTGGCCTTCAACTTTGGCAGCCGTCCTCTGCG
Seq A exon
ATATCATTTTGTGAAGATGGCTGTGGGCTGCTCAGAAGCTCTTGGGGAGGCTGGGATGAGGGGCTCCCTACCCCAGGGGTGCCATGGGCTGGTGGCAGGCCCTGGCTGCTGCAGAGTTAGTGGGGGGCCATGTAGAGTGTCGAAGAAAACTTTCCTCGCAGCAGCCTGGTTGGTTGGGTGCCCTTGTCTCCACTGAACAGATGAGGAATGTGAAGCATCCTCCCTAGGGAGAATAAGTGGGCAAGTTGTGATGCAAACCAGCCCTGCCCTAGAGCCCAGGCCCCGGGGTGGGGGGTGGGCAGTGGAGAGGGAGTAGGCATGTCTGAGCCACAGATAAGGCGTTGCTGGCTTAACTCTGGCAC
Seq C2 exon
CTACCCAGTGGCAGGCTACCGGCCCCTGCAGGACCCACCGAGTGCTGACCTGGTGCGGGCACAGAGGTTGCTGGGCTGCTTCCGGGCAGTGCTGAGTGTGGAGCTGGACCCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164068-RNF123:NM_022064:10
Average complexity
IR-C
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:
PF0062223=SPRY=PD(32.8=93.0)
A:
NA
C2:
NO
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:
GAACGGTGTATCACTGGGCAC
R:
AGGGTCCAGCTCCACACTC
Band lengths:
238-600
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)