HsaINT0152132 @ hg38
Intron Retention
Gene
ENSG00000167114 | SLC27A4
Description
solute carrier family 27 member 4 [Source:HGNC Symbol;Acc:HGNC:10998]
Coordinates
chr9:128353025-128353541:+
Coord C1 exon
chr9:128353025-128353234
Coord A exon
chr9:128353235-128353414
Coord C2 exon
chr9:128353415-128353541
Length
180 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCGG
5' ss Score
9.13
3' ss Seq
CCAAGTCTTGGCCTTCGCAGGTG
3' ss Score
6.22
Exon sequences
Seq C1 exon
ATTGTGCAGTACATTGGTGAACTGTGCCGCTACCTCCTGAACCAGCCACCGCGGGAGGCAGAAAACCAGCACCAGGTTCGCATGGCACTAGGCAATGGCCTCCGGCAGTCCATCTGGACCAACTTTTCCAGCCGCTTCCACATACCCCAGGTGGCTGAGTTCTACGGGGCCACAGAGTGCAACTGTAGCCTGGGCAACTTCGACAGCCAG
Seq A exon
GTGCGGCCAGGTTGGGGATGGGCGAGGCTGCTGCAGGGATGGCCCACAGAAGGCACTGGATGCAGAGGGGAGGGCAGAGTTCGAGCGTGAGAGTGTGGGTGCTGGAGTCCCACTTCCCCCTCATTGTCCAGTTTTGGGCCCATGGTGAGAGAGCCCAGGCCCAAGTCTTGGCCTTCGCAG
Seq C2 exon
GTGGGGGCCTGTGGTTTCAATAGCCGCATCCTGTCCTTCGTGTACCCCATCCGGTTGGTACGTGTCAACGAGGACACCATGGAGCTGATCCGGGGGCCCGACGGCGTCTGCATTCCCTGCCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167114:ENST00000300456:8
Average complexity
IR
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(15.9=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(9.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTGGTGAACTGTGCCGCTA
R:
GTACACGAAGGACAGGATGCG
Band lengths:
244-424
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