HsaINT0152093 @ hg38
Intron Retention
Gene
ENSG00000130304 | SLC27A1
Description
solute carrier family 27 member 1 [Source:HGNC Symbol;Acc:HGNC:10995]
Coordinates
chr19:17500712-17501419:+
Coord C1 exon
chr19:17500712-17500876
Coord A exon
chr19:17500877-17501272
Coord C2 exon
chr19:17501273-17501419
Length
396 bp
Sequences
Splice sites
5' ss Seq
CAGGCAAGC
5' ss Score
2.13
3' ss Seq
AGCTGAGCCTCTGCCTCCAGGAG
3' ss Score
5.16
Exon sequences
Seq C1 exon
GTGACGTGCTAGTGATGGATGAGCTGGGCTACATGTACTTCCGGGACCGTAGCGGGGACACCTTCCGCTGGCGAGGGGAGAACGTCTCCACCACCGAGGTGGAGGGCGTGCTGAGCCGCCTGCTGGGCCAGACAGACGTGGCCGTCTATGGGGTGGCTGTTCCAG
Seq A exon
GCAAGCTGGGGTTGCAGGGGGTGGTCCTGAGGCATGGTCCTGAGGGAGCTCAGCCAAAAGGGGCTTAGAAGTACACATGCCTTTGGGCAGTGCACAACCTGGACAACTGCTCATGGCAGCCCAGGAGGAAGCACTGGATCTGGAGCCAGTTCACCTGGGTGATGTTGAGCCTCAGTTTTGTCATCCAGAAAATGGGATCATGAAAGCCCACCTGTCTTAGGGCTTCAATGAGCCAAGCAGGAGCTCCACAAAATGTGTGGCTGCTTCCATAAATGTCATCCCAGGTTGGGAGAGACTGGAGATTACAGACCAGGGGCTACTGCTTGACAGTGTATCTGGTCCTGCTGGTGGGGAGGATGAGAGGCGGGGTGTCCTCAGCTGAGCCTCTGCCTCCAG
Seq C2 exon
GAGTGGAGGGTAAGGCAGGGATGGCGGCCGTCGCAGACCCCCACAGCCTGCTGGACCCCAACGCGATATACCAGGAGCTGCAGAAGGTGCTGGCACCCTATGCCCGGCCCATCTTCCTGCGCCTCCTGCCCCAGGTGGACACCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130304:ENST00000252595:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.027 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(5.5=42.9),PF131931=AMP-binding_C=PU(30.3=41.1)
A:
NA
C2:
PF131931=AMP-binding_C=FE(64.5=100)
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:
GTGACGTGCTAGTGATGGATGA
R:
GCAGGAGGCGCAGGAAGAT
Band lengths:
294-690
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