HsaINT0090850 @ hg19
Intron Retention
Gene
ENSG00000139624 | LASS5
Description
ceramide synthase 5 [Source:HGNC Symbol;Acc:23749]
Coordinates
chr12:50529515-50529852:-
Coord C1 exon
chr12:50529724-50529852
Coord A exon
chr12:50529622-50529723
Coord C2 exon
chr12:50529515-50529621
Length
102 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAA
5' ss Score
7.3
3' ss Seq
TTCTTTCTTCCTTTCTCCAGGCA
3' ss Score
11.27
Exon sequences
Seq C1 exon
GACTTCCTGATCATGTTTGTGCATCACTTGGTCACCATTGGGCTTATCTCCTTCTCCTACATCAACAATATGGTTCGAGTGGGAACTCTGATCATGTGTCTACATGATGTCTCAGACTTCTTGCTGGAG
Seq A exon
GTAAAAACCCAATCTCTCTTTCTCCATCTTCTTCTTCTCTTCTTTTCTTCCTATGTGAGGAATGACTTTCTCCCCAGCTCAATTCTTTCTTCCTTTCTCCAG
Seq C2 exon
GCAGCCAAACTGGCCAATTATGCCAAGTATCAGCGGCTCTGTGACACCCTTTTTGTGATCTTCAGTGCTGTTTTTATGGTTACACGACTAGGAATCTATCCATTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000139624-LASS5:NM_147190:7
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0379811=TRAM_LAG1_CLN8=PU(30.8=96.0)
A:
NA
C2:
PF0379811=TRAM_LAG1_CLN8=PU(31.7=95.2)
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:
ACTTCCTGATCATGTTTGTGCA
R:
CAGAATGGATAGATTCCTAGTCGTGT
Band lengths:
235-337
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)