HsaINT0090842 @ hg38
Intron Retention
Gene
ENSG00000090661 | CERS4
Description
ceramide synthase 4 [Source:HGNC Symbol;Acc:HGNC:23747]
Coordinates
chr19:8256618-8257077:+
Coord C1 exon
chr19:8256618-8256710
Coord A exon
chr19:8256711-8256948
Coord C2 exon
chr19:8256949-8257077
Length
238 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TGACCCACCGTCTACTGCAGGAT
3' ss Score
8.46
Exon sequences
Seq C1 exon
ACTCTGAAGCCATCCCTGTACTGGTGGTACCTCTTGGAGCTGGGTTTCTACCTCTCACTGCTAATCAGGCTGCCCTTTGATGTCAAGCGCAAG
Seq A exon
GTGAGGCCAAATAAGAGTCTGGAAGACCCAGTCTCTGGCCGGGATGCTGGGGTGCTGGGGGGTAGGGCAGCCTTACAACCGCACCTTGAGAGCTCCCTGGTGCCTCCTGCAGGAGATATAGAGGCCATGGGCCCAGAGGCCACACCAACCCCCTGAAAGGACCCACTTCTTGGCCCATAGGGTGGGGGACCTTCCAGCATCAAGCCTCGTCCCCACTATGACCCACCGTCTACTGCAG
Seq C2 exon
GATTTCAAGGAGCAGGTGATACACCACTTCGTGGCGGTCATCCTGATGACCTTCTCCTACAGTGCCAACCTGCTGCGCATTGGCTCTCTGGTGCTGCTGTTACACGATTCCTCTGACTACCTGCTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090661:ENST00000251363:8
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:
PF0379811=TRAM_LAG1_CLN8=PD(29.5=90.0)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCTGAAGCCATCCCTGTACT
R:
CTCCAGCAGGTAGTCAGAGGA
Band lengths:
222-460
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
- Pre-implantation embryo development