HsaINT0064155 @ hg19
Intron Retention
Gene
ENSG00000135723 | FHOD1
Description
formin homology 2 domain containing 1 [Source:HGNC Symbol;Acc:17905]
Coordinates
chr16:67264217-67264694:-
Coord C1 exon
chr16:67264504-67264694
Coord A exon
chr16:67264410-67264503
Coord C2 exon
chr16:67264217-67264409
Length
94 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGGG
5' ss Score
6.53
3' ss Seq
CCCTACTCTGACCTGCCTAGGTT
3' ss Score
7.16
Exon sequences
Seq C1 exon
GTGGACTTTGAACAGCTGACTGAGAACCTGGGGCAGCTGGAGCGCCGGAGCCGGGCAGCCGAGGAGAGCCTGCGGAGCTTGGCCAAGCATGAGCTGGCCCCAGCCCTGCGTGCCCGCCTCACCCACTTCCTGGACCAGTGTGCCCGCCGTGTTGCCATGCTAAGGATAGTGCACCGCCGTGTCTGCAATAG
Seq A exon
GTAGGGGCATGGACCCAAGAGAGGCAGGACGGCCACCACCCTCCCTCAGACAATAAGCAGGACTTACTGTCCCTCCCTACTCTGACCTGCCTAG
Seq C2 exon
GTTCCATGCCTTCCTGCTCTACCTGGGCTACACCCCGCAGGCGGCCCGTGAAGTGCGCATCATGCAGTTCTGCCACACGCTGCGGGAATTTGCGCTTGAGTATCGGACTTGCCGGGAACGAGTGCTACAGCAGCAGCAGAAGCAGGCCACATACCGTGAGCGCAACAAGACCCGGGGACGCATGATCACCGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000135723-FHOD1:NM_013241:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.338
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(16.9=100)
A:
NA
C2:
PF0218118=FH2=PD(9.4=53.8)
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:
ATGCTAAGGATAGTGCACCGC
R:
CTGCTTCTGCTGCTGCTGTAG
Band lengths:
180-274
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)