HsaINT0152096 @ hg19
Intron Retention
Gene
ENSG00000130304 | SLC27A1
Description
solute carrier family 27 (fatty acid transporter), member 1 [Source:HGNC Symbol;Acc:10995]
Coordinates
chr19:17597983-17598338:+
Coord C1 exon
chr19:17597983-17598144
Coord A exon
chr19:17598145-17598268
Coord C2 exon
chr19:17598269-17598338
Length
124 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGT
5' ss Score
11.45
3' ss Seq
AACACCTGTATCTCCTGCAGATC
3' ss Score
10.64
Exon sequences
Seq C1 exon
CGGTGGCCGAAGTGAGCGGGCATCTGGGGAAAAGTTTGATCAAGTTCTGCTCTGGAGACTTGGGGCCCGAGGGCATCTTGCCGGACACCCACCTCCTGGACCCGCTGCTGAAGGAGGCCTCTACTGCCCCCTTGGCACAGATCCCCAGCAAGGGCATGGACG
Seq A exon
GTGAGTCAAGGGTGGGACCCCTGCTCTATCAACTGGTTTCCTACCCGCCCAGGCCCCGCCCCCAACTTCCAGGCCCCACCCCCCAATGCTCAGGCCCCACCCCTAACACCTGTATCTCCTGCAG
Seq C2 exon
ATCGTCTTTTCTACATCTACACGTCGGGGACCACCGGGCTGCCCAAGGCTGCCATTGTCGTGCACAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130304-SLC27A1:NM_198580:3
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=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(12.4=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(5.3=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:
CCGAAGTGAGCGGGCATC
R:
CTGCTGTGCACGACAATGGC
Band lengths:
226-350
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)