HsaINT0065105 @ hg19
Intron Retention
Gene
ENSG00000184922 | FMNL1
Description
formin-like 1 [Source:HGNC Symbol;Acc:1212]
Coordinates
chr17:43321158-43321611:+
Coord C1 exon
chr17:43321158-43321392
Coord A exon
chr17:43321393-43321542
Coord C2 exon
chr17:43321543-43321611
Length
150 bp
Sequences
Splice sites
5' ss Seq
CCGGTGTGG
5' ss Score
4.97
3' ss Seq
CTCCCCCATCCCACCCCCAGCAA
3' ss Score
7.67
Exon sequences
Seq C1 exon
GTACGACCTGCAGGCTCTGGGCCTGGACTTCCTGGAGCTGCTGATGCGCTTCCTGCCCACAGAGTATGAGCGCAGCCTCATCACCCGCTTTGAGCGGGAGCAGCGGCCAATGGAGGAGCTGTCAGAGGAGGACCGCTTCATGCTATGCTTCAGCCGCATCCCGCGCCTGCCGGAGCGCATGACCACACTCACCTTCCTGGGCAACTTCCCGGACACAGCCCAGCTGCTCATGCCG
Seq A exon
GTGTGGGCGGAGCGGGCAGGGCGGTGTGACTTGGGAGGGGATGGGCAGGAGGCAACTCCCAGCCTGGGCTGCGGCAGGGAACCTGGGAGTACTTGAGCCTCCAGATGGAGGAGGCTCCAACTTATCTTACCTCCCCCATCCCACCCCCAG
Seq C2 exon
CAACTGAATGCCATCATTGCAGCCTCAATGTCCATCAAGTCCTCTGACAAACTCCGCCAGATCCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184922-FMNL1:NM_005892:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0218118=FH2=FE(21.3=100)
A:
NA
C2:
PF0218118=FH2=FE(6.0=100)
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:
GACTTCCTGGAGCTGCTGATG
R:
TGATGGACATTGAGGCTGCAA
Band lengths:
247-397
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)