HsaINT0065117 @ hg19
Intron Retention
Gene
ENSG00000184922 | FMNL1
Description
formin-like 1 [Source:HGNC Symbol;Acc:1212]
Coordinates
chr17:43311015-43311567:+
Coord C1 exon
chr17:43311015-43311098
Coord A exon
chr17:43311099-43311438
Coord C2 exon
chr17:43311439-43311567
Length
340 bp
Sequences
Splice sites
5' ss Seq
CACGTAAGC
5' ss Score
6.58
3' ss Seq
CCATTGCATCCTGTCCCCAGGTA
3' ss Score
10.05
Exon sequences
Seq C1 exon
GTGGGTGCAGGAGTTCCTCAATGAAGAGAACCGTGGCCTGGATGTGCTGCTCGAGTACCTGGCCTTTGCCCAGTGCTCTGTCAC
Seq A exon
GTAAGCCCCCTGCTCCCAGCCCTCATGCCGCTCCTCAGAGCTTTGATCCCCGTCTCCCTGCATCTCACCCACTCCCCTGGCCAGTTTCAAGCCAGGCAGCCCGAGCCTACCCTGGAACCCTCCACTTGGCCTTGAGCGATGCTCCTTCCAGAAGGCCTGCCCCCGACAGGGAGGGGTGGCCTCTCTTCCACCACTATGTTCAGCACAGTGCCAAGAACACAGCCTCCTCCTCCTGCTCCTTAGTCTCACCTGCAGGTCTGTCTCTCCTTGCGTTTCCTCTGCCCCCTCTTAAGTGGCCCCTGCAGTGTTGGCCTCCAGCCCCATTGCATCCTGTCCCCAG
Seq C2 exon
GTATGACATGGAGAGCACAGACAACGGGGCTTCCAACTCAGAGAAAAACAAGCCCCTGGAGCAGTCTGTGGAAGACCTCAGCAAGGGTCCACCCTCCTCCGTGCCCAAAAGCCGCCACCTGACCATCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000184922-FMNL1:NM_005892:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.795
Domain overlap (PFAM):
C1:
PF063718=Drf_GBD=FE(19.0=100)
A:
NA
C2:
PF063718=Drf_GBD=PD(7.5=25.0),PF063718=Drf_GBD=PU(3.8=6.8)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGTGCAGGAGTTCCTCAATG
R:
ATGGTCAGGTGGCGGCTTTT
Band lengths:
208-548
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)