HsaINT0152098 @ hg38
Intron Retention
Gene
ENSG00000130304 | SLC27A1
Description
solute carrier family 27 member 1 [Source:HGNC Symbol;Acc:HGNC:10995]
Coordinates
chr19:17488848-17489117:+
Coord C1 exon
chr19:17488848-17488939
Coord A exon
chr19:17488940-17489007
Coord C2 exon
chr19:17489008-17489117
Length
68 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTA
5' ss Score
7.64
3' ss Seq
ACCAAGGCCACCCTCTGCAGGAA
3' ss Score
4.62
Exon sequences
Seq C1 exon
GTACTACCGCATGGCAGCCTTCGGCCACCACGCCTACCGCATGCAGGCGGCTGACGTGCTCTATGACTGCCTGCCCCTGTACCACTCGGCAG
Seq A exon
GTACTACGGCCTGGGTAGGGAATGGTGGGTGGGGGCGGGGGACCCCTTACCAAGGCCACCCTCTGCAG
Seq C2 exon
GAAACATCATCGGCGTGGGGCAGTGTCTCATCTATGGGCTGACAGTCGTCCTCCGCAAGAAATTCTCGGCCAGCCGCTTCTGGGACGACTGCATCAAGTACAACTGCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000130304:ENST00000252595:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.044 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(7.1=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(11.5=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:
GTACTACCGCATGGCAGCCTT
R:
GGCTGGCCGAGAATTTCTTGC
Band lengths:
167-235
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains