HsaINT0152124 @ hg38
Intron Retention
Gene
ENSG00000167114 | SLC27A4
Description
solute carrier family 27 member 4 [Source:HGNC Symbol;Acc:HGNC:10998]
Coordinates
chr9:128355398-128355796:+
Coord C1 exon
chr9:128355398-128355562
Coord A exon
chr9:128355563-128355649
Coord C2 exon
chr9:128355650-128355796
Length
87 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
GTCTACCCTGCCACCCCCAGGAA
3' ss Score
8.15
Exon sequences
Seq C1 exon
GTGATGTGCTGGTGATGGACGAGCTGGGCTACCTGTACTTCCGAGACCGCACTGGGGACACGTTCCGCTGGAAAGGTGAGAACGTGTCCACCACCGAGGTGGAAGGCACACTCAGCCGCCTGCTGGACATGGCTGACGTGGCCGTGTATGGTGTCGAGGTGCCAG
Seq A exon
GTATGTGCAGGCAGGCGCGAGGTGTGGGTAGGGAGGCACCACCCAGGGGCACCACCAGCTACTCAGTGTCTACCCTGCCACCCCCAG
Seq C2 exon
GAACCGAGGGCCGGGCCGGAATGGCTGCTGTGGCCAGCCCCACTGGCAACTGTGACCTGGAGCGCTTTGCTCAGGTCTTGGAGAAGGAACTGCCCCTGTATGCGCGCCCCATCTTCCTGCGCCTCCTGCCTGAGCTGCACAAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167114:ENST00000300456:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.054 A=NA C2=0.100
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(53.3=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:
GCTGGAAAGGTGAGAACGTGT
R:
CTCCAAGACCTGAGCAAAGCG
Band lengths:
182-269
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains