HsaINT0152095 @ hg19
Intron Retention
Gene
ENSG00000130304 | SLC27A1
Description
solute carrier family 27 (fatty acid transporter), member 1 [Source:HGNC Symbol;Acc:10995]
Coordinates
chr19:17597372-17598144:+
Coord C1 exon
chr19:17597372-17597766
Coord A exon
chr19:17597767-17597982
Coord C2 exon
chr19:17597983-17598144
Length
216 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
CCATGTGTTGGGGACCACAGCGG
3' ss Score
1.77
Exon sequences
Seq C1 exon
CGGTCTCTCTGTGCTGATCCGCGTGCGCCTGGAGCTGCGGCGGCACCAGCGTGCCGGCCACACCATCCCGCGCATCTTTCAGGCGGTAGTGCAGCGACAGCCCGAGCGCCTGGCGCTGGTGGATGCCGGGACCGGCGAGTGCTGGACCTTTGCGCAGCTGGACGCCTACTCCAATGCGGTAGCCAACCTCTTCCGCCAGCTGGGCTTCGCGCCGGGCGACGTGGTGGCCATCTTCCTGGAGGGCCGGCCGGAGTTCGTGGGGCTGTGGCTGGGCCTGGCCAAGGCGGGCATGGAGGCCGCGCTGCTCAACGTGAACCTGCGGCGCGAGCCCCTGGCCTTCTGCCTGGGCACCTCGGGCGCTAAGGCCCTGATCTTTGGAGGAGAAATGGTGGCGG
Seq A exon
GTGAGGCCAGGCGTGGGCATCAGGTGGGCGGGGACCCAGGACTGGCCCCTGGGCGGGCGGGGAGATGCTGCGCCCCAGGCCTCGGAAGGCGGCCGCCCTGGACGTGGGCATGAGGTGCACGGTCTGGGTATGCCCCGGGCAGGGAGTTGGTGCATCCCAGGCCTCGGGAGGGGGCCTGTCCGGCGGTGACCATGACCCATGTGTTGGGGACCACAG
Seq C2 exon
CGGTGGCCGAAGTGAGCGGGCATCTGGGGAAAAGTTTGATCAAGTTCTGCTCTGGAGACTTGGGGCCCGAGGGCATCTTGCCGGACACCCACCTCCTGGACCCGCTGCTGAAGGAGGCCTCTACTGCCCCCTTGGCACAGATCCCCAGCAAGGGCATGGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130304-SLC27A1:NM_198580:2
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=WD(100=72.4),PF084796=POTRA_2=WD(100=32.9)
A:
NA
C2:
PF0050123=AMP-binding=FE(12.4=100)
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACTCCAATGCGGTAGCCAAC
R:
CCCCAAGTCTCCAGAGCAGAA
Band lengths:
294-510
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)