HsaINT0152123 @ hg38
Intron Retention
Gene
ENSG00000167114 | SLC27A4
Description
solute carrier family 27 member 4 [Source:HGNC Symbol;Acc:HGNC:10998]
Coordinates
chr9:128355053-128355562:+
Coord C1 exon
chr9:128355053-128355190
Coord A exon
chr9:128355191-128355397
Coord C2 exon
chr9:128355398-128355562
Length
207 bp
Sequences
Splice sites
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
3' ss Seq
CTCATCCGGCCCCTCCCTAGGTG
3' ss Score
9.73
Exon sequences
Seq C1 exon
GTGAGCCGGGCCAGCTGGTGGGCCGCATCATCCAGAAAGACCCCCTGCGCCGCTTCGATGGCTACCTCAACCAGGGCGCCAACAACAAGAAGATTGCCAAGGATGTCTTCAAGAAGGGGGACCAGGCCTACCTTACTG
Seq A exon
GTGGGTCCCCAGCCCTTCACAGCCCCTTCCTGAGGGTTGGGGGAGGAGGGGACCTTCTCCCACCTCCAGAGGACACCTTCCCAGGACTCCCCCAGTCCTGGCCCTTGTGGTCAAACAAATCCTTGGGCTCCAGCAAAGCCTCCCTGGCTTGAGCCCTGGTCTCAGAGCTGGCCAGGCCCAGCCCTGCCTCATCCGGCCCCTCCCTAG
Seq C2 exon
GTGATGTGCTGGTGATGGACGAGCTGGGCTACCTGTACTTCCGAGACCGCACTGGGGACACGTTCCGCTGGAAAGGTGAGAACGTGTCCACCACCGAGGTGGAAGGCACACTCAGCCGCCTGCTGGACATGGCTGACGTGGCCGTGTATGGTGTCGAGGTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000167114:ENST00000300456:10
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=0.054
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(10.6=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(53.3=42.9),PF131931=AMP-binding_C=PU(30.3=41.1)
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:
GGGCCGCATCATCCAGAAAG
R:
CTGGCACCTCGACACCATACA
Band lengths:
284-491
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains