HsaINT0138835 @ hg38
Intron Retention
Gene
ENSG00000056586 | RC3H2
Description
ring finger and CCCH-type domains 2 [Source:HGNC Symbol;Acc:HGNC:21461]
Coordinates
chr9:122854531-122855397:-
Coord C1 exon
chr9:122855184-122855397
Coord A exon
chr9:122854616-122855183
Coord C2 exon
chr9:122854531-122854615
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:ENST00000373670:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.424 A=NA C2=0.059
Domain overlap (PFAM):
C1:
PF080437=Xin=WD(100=19.4)
A:
NA
C2:
NO
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:
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