HsaINT0138834 @ hg19
Intron Retention
Gene
ENSG00000056586 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:21461]
Coordinates
chr9:125617463-125618157:-
Coord C1 exon
chr9:125618011-125618157
Coord A exon
chr9:125617677-125618010
Coord C2 exon
chr9:125617463-125617676
Length
334 bp
Sequences
Splice sites
5' ss Seq
ATGGTATGA
5' ss Score
6.56
3' ss Seq
ATTTTCTTTGGTTTACATAGGAC
3' ss Score
8.25
Exon sequences
Seq C1 exon
TTCTCAGAGAGTGTGAGTGGTACAAAATTTGAAGAAGATCATCTTTCCCATTATTCTCCCTGGTCTTGTGGCACCATAGGCTCCTGTATAAATGCCATTGATTCAGAGCCCAAAGATGTCATTGCTAATTCAAATGCTGTGTTAATG
Seq A exon
GTATGATTTTGCTGGGGTTGCAGGGGTTGGAGGTGAGAGATGATGCATGTTCACTCATGTTGTAGAATGAATGTTTTCTATTCATTCATTCATATTGTTGCCTTATAACTCAGTAGCAGCAGGGTTATATTTAGGTAAGTCTGAAATAAATTATATTTAATATTTAAGTTATTTGAACATTGGTGGTTTACTGGTAGTTTGTTGGATTATCGTTGAGTCTAGAGCTAGTTTTAAATTAACCAAAAAACCTAATTACATGTCTTTTGATAGCATATATTTACTAGCTGAAGTAATTGCCAACAGTCCTTTTATTGATTTTCTTTGGTTTACATAG
Seq C2 exon
GACCTGGACAGTGGTGATGTTAAGAGAAGAGTACATTTATTTGAAACCCAGAGAAGGACAAAAGAAGAAGATCCAATAATTCCCTTTAGTGATGGACCCATCATCTCAAAATGGGGTGCGATTTCCAGATCTTCCCGTACAGGTTACCATACCACAGATCCTGTCCAGGCCACTGCTTCCCAAGGAAGTGCGACTAAGCCCATCAGTGTATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000056586-RC3H2:NM_018835:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.421
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF080437=Xin=WD(100=19.4)
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:
TCTCAGAGAGTGTGAGTGGTACA
R:
GATGGGCTTAGTCGCACTTCC
Band lengths:
350-684
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)