HsaINT0151876 @ hg19
Intron Retention
Gene
ENSG00000181240 | SLC25A41
Description
solute carrier family 25, member 41 [Source:HGNC Symbol;Acc:28533]
Coordinates
chr19:6427114-6427512:-
Coord C1 exon
chr19:6427345-6427512
Coord A exon
chr19:6427262-6427344
Coord C2 exon
chr19:6427114-6427261
Length
83 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGG
5' ss Score
8.98
3' ss Seq
CTGGCCCCCTTCTCTTGCAGATG
3' ss Score
13.07
Exon sequences
Seq C1 exon
GTGCTGAAGACGCGGTTGACCTTGCGTCGGACGGGCCAGTACAAGGGGCTGCTGGACTGCGCCAGGCAGATCTTGCAGCGAGAGGGCACCCGCGCCCTTTACCGCGGCTACCTGCCCAATATGCTCGGCATCATCCCCTATGCCTGCACCGACCTGGCTGTCTATGAG
Seq A exon
GTATGGGTCCTGCAGAGGGGGTGGCAGGGCTGGCCGGAGCCCAGGCTCCTAGTGAGCTTTCTCCTGGCCCCCTTCTCTTGCAG
Seq C2 exon
ATGCTCCAGTGCTTCTGGGTGAAGTCAGGCAGGGATATGGGGGACCCCAGTGGCCTGGTCAGTCTGTCGTCTGTGACGCTATCCACGACCTGTGGCCAGATGGCCAGCTACCCACTGACTCTGGTGCGCACCAGGATGCAGGCCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000181240-SLC25A41:NM_173637:5
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0015322=Mito_carr=FE(59.1=100)
A:
NA
C2:
PF0015322=Mito_carr=PD(9.7=18.0),PF0015322=Mito_carr=PU(38.7=72.0)
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:
GCATCATCCCCTATGCCTGC
R:
CACCAGAGTCAGTGGGTAGCT
Band lengths:
167-250
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
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)