HsaINT0141259 @ hg19
Intron Retention
Gene
ENSG00000164068 | RNF123
Description
ring finger protein 123 [Source:HGNC Symbol;Acc:21148]
Coordinates
chr3:49758453-49758962:+
Coord C1 exon
chr3:49758453-49758538
Coord A exon
chr3:49758539-49758617
Coord C2 exon
chr3:49758618-49758962
Length
79 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
CATCCCCTCCCCTGTTGTAGAGC
3' ss Score
9.37
Exon sequences
Seq C1 exon
CCCACCAGTGAGGAGGACCTCTGCCCCATCTGCTATGCCCACCCCATCTCTGCTGTGTTCCAGCCCTGTGGCCACAAGTCCTGCAA
Seq A exon
GTAAGTGGGCCCCACAGCTTGGTGGTGGGGAGAGCAGTAGGTACATGCAGGGCAGTCCTCATCCCCTCCCCTGTTGTAG
Seq C2 exon
AGCCTGTATCAACCAGCACCTGATGAACAACAAGGACTGCTTCTTCTGCAAAACCACCATCGTGTCTGTAGAGGACTGGGAGAAGGGAGCCAATACGAGTACTACCTCCTCAGCTGCCTAGCCCTCACAGCCTGTGCCATCCTGGAACCTCCACCTTTGAACCCAGAGCCAGGCTGGGCCCTATTTATGAGCTCCCTTTGCCCTTCTCCTGTATCCCACACCACCACATCCAACCTCCTTGCCTGCCTGTATCCTCATTGGTGGGAGCCCAGCCATGGCCCTAATTGTGCCTGAGCTTGACTTTCAGTCAGGGCCACAGTGAGCATTAAATTATTATTCCATACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000164068-RNF123:NM_022064:38
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.143
Domain overlap (PFAM):
C1:
PF042167=FdhE=FE(25.7=100),PF139201=zf-C3HC4_3=PU(51.0=86.2)
A:
NA
C2:
PF042167=FdhE=PD(20.2=53.7),PF139201=zf-C3HC4_3=PD(46.9=56.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCCCATCTCTGCTGTGTTC
R:
CTAGGCAGCTGAGGAGGTAGT
Band lengths:
168-247
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)