HsaINT0090848 @ hg19
Intron Retention
Gene
ENSG00000139624 | LASS5
Description
ceramide synthase 5 [Source:HGNC Symbol;Acc:23749]
Coordinates
chr12:50531511-50532400:-
Coord C1 exon
chr12:50532350-50532400
Coord A exon
chr12:50531604-50532349
Coord C2 exon
chr12:50531511-50531603
Length
746 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
TACTTCTTTCTCTCTTCCAGCCT
3' ss Score
9.75
Exon sequences
Seq C1 exon
TCACCTTGGTTCTGGGACATCCGACAGTGCTGGCATAACTATCCATTTCAG
Seq A exon
GTAGGATCTGAGTCGTTTCAGGATAGGGGTCTTGAATGTGTATAAGGTGGAGTGAGTGAGGGTCCTTTGCCAGTCCCCAGGACAGATGGTGCGTTTCCTTGGGATTGAGGGATTAGGGACTGAGTCCCTTTAAGTCATATTCAGGGTATCTATTTTTTTTTCCCCCCCACTGCTAAGAGTCATATGAGGTATCTATTCCTGAGGCCCCCATAGCAATGAAATCCAATGAGTTTTTTGTTCTGATTTTCCCCATTTAATTCCCCCTAATTGGGCTAAAAGAAAAGCAAGTTTCTGGTATTTAATGAGGTACTTTCTGGTTCAGGTGTCTTTTTTGTATCAAGGGTAACTTGGAATCCCAGTAGAGCATCTTGGTTGTAACCTATACTGGAAATATGTCTAGGAACTGCTAAAGGGGTGGAAGAGAAGGCCTATGTGTATTTAATCCTGTGAAAAGCACTAATTGCCCAGAATCCTAGACATACTGATTTGATTGTGTTACAGTATGTGTTAACTGTATCTCATCTCTGCAAGATGAGAGCTGAAGATGTGTGTGCAGAGGAGCAAGGGAAGAGGCTTAAGTCTCTACACCAATCCAAAGTCTGTTAGCTATTGCATATCTTGGCAGATAATGGGGAGGAGAGATGTCTAATAATTTGGGGTATTGGTCCTCCAAGGCAGAGAAAGTTGGAGAGATGGAATGCACCTTTGACTAGCCGGTAATCTAACTACTTCTTTCTCTCTTCCAG
Seq C2 exon
CCTCTTTCAAGTGGGCTTTATCACTATTATATCATGGAATTGGCCTTCTATTGGTCCCTTATGTTTTCTCAGTTTACAGACATTAAAAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139624-LASS5:NM_147190:5
Average complexity
IR-S
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=PU(14.9=77.8)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=FE(15.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)