HsaINT0138836 @ hg19
Intron Retention
Gene
ENSG00000056586 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:21461]
Coordinates
chr9:125616464-125616894:-
Coord C1 exon
chr9:125616810-125616894
Coord A exon
chr9:125616546-125616809
Coord C2 exon
chr9:125616464-125616545
Length
264 bp
Sequences
Splice sites
5' ss Seq
AAGGTAACG
5' ss Score
10.19
3' ss Seq
AAACATATTTCTCTTTAAAGGGA
3' ss Score
6.76
Exon sequences
Seq C1 exon
ATTATGTCCCTTATGTCAATGCTGTTGATTCAAGGTGGAGTTCATATGGCAACGAGGCCACATCATCAGCACACTATGTTGAAAG
Seq A exon
GTAACGTTCTTCTTAATTCTATATGATTCTCCATTCTCAGACTTGTATGTATCTTAAGGGTACACATTCTACCCCCAGTTCATGAAATGTGCTTTGCTTGTTGTCTGAGCTATATAACAAATTTCTGAAAAATATTTGCATTTAAATTTGGAACGATGAGTGAAGTTTTCAGGGTTGATCTGTCACATAAAACATATGGTTATTACTGCTTTTGTTGCTTCATTCACTTCACTTTTATTACAATAAACATATTTCTCTTTAAAG
Seq C2 exon
GGACAGATTCATTGTTACTGATTTATCTGGTCATAGAAAGCATTCCAGTACTGGGGACCTTTTGAGCCTTGAACTTCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000056586-RC3H2:NM_018835:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.042 A=NA C2=0.157
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTCCCTTATGTCAATGCTGTTGA
R:
CTGCTGAAGTTCAAGGCTCAA
Band lengths:
164-428
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)