HsaINT0064166 @ hg19
Intron Retention
Gene
ENSG00000135723 | FHOD1
Description
formin homology 2 domain containing 1 [Source:HGNC Symbol;Acc:17905]
Coordinates
chr16:67270869-67271285:-
Coord C1 exon
chr16:67271142-67271285
Coord A exon
chr16:67271018-67271141
Coord C2 exon
chr16:67270869-67271017
Length
124 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGC
5' ss Score
6.32
3' ss Seq
TCCTGGTCCGCCTCTGCTAGAAC
3' ss Score
4.66
Exon sequences
Seq C1 exon
ACGCTGGCGGCGCTCCCGGACCAGGACTCCTTCTACGATGTGACGGATGCACTGGAGCAGCAGGGCATGGAAGCGCTGGTCCAGCGCCACCTGGGCACTGCGGGCACTGACGTCGACCTGCGCACGCAGCTTGTGCTCTACGAG
Seq A exon
GTGGGCCGGGCCTTACGCTCTGAGGCGGATTGGAAAGAGGGAAGAGAGAAGCGCAGTCCCCAGCGCCCCACCCCACCTGCATACACGTTAACCACTTTCTTACATCCTGGTCCGCCTCTGCTAG
Seq C2 exon
AACGCCCTGAAATTGGAGGATGGAGACATCGAAGAAGCCCCAGGCGCTGGTGGGCGGCGGGAACGACGAAAGCCTTCTTCTGAGGAGGGCAAGAGGAGCCGCCGTTCTCTGGAAGGCGGGGGCTGCCCCGCGCGTGCCCCGGAACCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135723-FHOD1:NM_013241:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.196 A=NA C2=0.876
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGACCAGGACTCCTTCTAC
R:
CCCCCGCCTTCCAGAGAA
Band lengths:
251-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)