HsaINT1029051 @ hg38
Intron Retention
Gene
ENSG00000056586 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:HGNC:21461]
Coordinates
chr9:122853952-122854266:-
Coord C1 exon
chr9:122854185-122854266
Coord A exon
chr9:122854087-122854184
Coord C2 exon
chr9:122853952-122854086
Length
98 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGC
5' ss Score
9.88
3' ss Seq
TTTTTTCCCTCCTCATATAGGCC
3' ss Score
10.9
Exon sequences
Seq C1 exon
GGACAGATTCATTGTTACTGATTTATCTGGTCATAGAAAGCATTCCAGTACTGGGGACCTTTTGAGCCTTGAACTTCAGCAG
Seq A exon
GTAGGCTCTGTAACTCAGCTATAAATTTTTGAGAAATAGAATGACAGTTGAAAGCTATAGTTGGAAGCTAACTTTTCTTTTTTTCCCTCCTCATATAG
Seq C2 exon
GCCAAGAGCAACTCATTACTTCTTCAGAGAGAGGCCAATGCTTTGGCCATGCAACAGAAGTGGAATTCCCTGGATGAAGGCCGTCACCTTACCTTAAACCTTTTAAGCAAGGAAATTGAACTAAGAAATGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000056586:ENST00000373670:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.150 A=NA C2=0.151
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTGATTTATCTGGTCATAGAAAGCA
R:
AGGTTTAAGGTAAGGTGACGGC
Band lengths:
167-265
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains