HsaINT0138835 @ hg19
Intron Retention
Gene
ENSG00000056586 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:21461]
Coordinates
chr9:125616810-125617676:-
Coord C1 exon
chr9:125617463-125617676
Coord A exon
chr9:125616895-125617462
Coord C2 exon
chr9:125616810-125616894
Length
568 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATC
5' ss Score
6.99
3' ss Seq
TTCATTCTACATGTCTGTAGATT
3' ss Score
7.06
Exon sequences
Seq C1 exon
GACCTGGACAGTGGTGATGTTAAGAGAAGAGTACATTTATTTGAAACCCAGAGAAGGACAAAAGAAGAAGATCCAATAATTCCCTTTAGTGATGGACCCATCATCTCAAAATGGGGTGCGATTTCCAGATCTTCCCGTACAGGTTACCATACCACAGATCCTGTCCAGGCCACTGCTTCCCAAGGAAGTGCGACTAAGCCCATCAGTGTATCAG
Seq A exon
GTAATCCATTTAGATAATACCTAGCCTGATATGTTCTAAGCACTATGCCTTTTTTTTTTTTTTTTTTAATTGAGACAGAGTCTCACTCTGTTGCCCAGACTGGAATGCAGTGGTGTGATCTTGGCTCACTGCAACCTCCATCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGATTATAGACATGCACCACCATGCCTGGCTAATTTTTGTATTTTTAGTAGAGAGTATTTTGTATTTTAGTTTCGCCATGTTGGCCAGGCTGGTCTGGAACTCCTGGCCTCATGTGATCCACCCGCCTCAGCCTCGCAAAGTGCTGGGATTACATATGTGAGCCACTGTGCCTGTCCTAAGCACTGTGCTTTTTAATCCCCAACTTGTGAAATGGAAAACATTTCCCTCCATTTAACAACCATGGGAAACTCAGAATTAGGTGTTTAACCAGCATCATATGGCTAGTGGGATAAAATACAGATCTATTTTGAGAAGTATACATTCACCTCAGTACACTGATTTTTCACTTTTTTGACCATTGTTTCATTCTACATGTCTGTAG
Seq C2 exon
ATTATGTCCCTTATGTCAATGCTGTTGATTCAAGGTGGAGTTCATATGGCAACGAGGCCACATCATCAGCACACTATGTTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000056586-RC3H2:NM_018835:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.421 A=NA C2=0.042
Domain overlap (PFAM):
C1:
PF080437=Xin=WD(100=19.4)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACCTGGACAGTGGTGATGTT
R:
AACATAGTGTGCTGATGATGTGGC
Band lengths:
294-862
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)