HsaINT0097302 @ hg19
Intron Retention
Gene
ENSG00000148356 | LRSAM1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:HGNC Symbol;Acc:25135]
Coordinates
chr9:130213765-130214363:+
Coord C1 exon
chr9:130213765-130213948
Coord A exon
chr9:130213949-130214207
Coord C2 exon
chr9:130214208-130214363
Length
259 bp
Sequences
Splice sites
5' ss Seq
ATCGTGAGT
5' ss Score
8.88
3' ss Seq
TTCTGAGTTTCTGTTCCCAGCAC
3' ss Score
5.85
Exon sequences
Seq C1 exon
AGAGACGCCCTTGTCGCCATGTTTGTTGTGGGCAGGCGCCTGAGGCTGACGGCTGGCAAGCAGGGCACCGCGGTGCGCTGAAGCTAGAGATTCCGAAAGGGGGTTCGGGTAGTTCGCTCCGGAGAAGTCTGAGAAGGGTGGCTCCGGTGATCCCAGCCCTAGCTGTTTCCCATATTCCTTTATC
Seq A exon
GTGAGTGTCACCCCGGTCCCCGTCACCCAATCCCAGAGCCCCGCCCCTCCCCTGAGGGGTCCGTAGTCCCATTCCGAGACCCCAGTACCGCGGCGACCCCTGCTCCCTCGAGCACTTGTTGTGTGCACTTTAGTTATCAAAACAGTCTATGTGGAAATCCAGTCCCGCTCTTCATTCGGAGAGTCCGCGATTCCTAGAGCCTCAGACTTCGTCATCCCGGTCTGCGTGACTTTATGAGATTCTGAGTTTCTGTTCCCAG
Seq C2 exon
CACCTGCCTTTGAAGGAGACCAGACTCCGGCTCCGCCCGGCCCGTGCCGGGTGGTCTGCGGCCCCGAGTCCGTGACCAAGCCCTCCGAGTGATCGGCCTGCCCTCGGGTGCACCCGCGGGTCCCAACGTGGGGGATCCCTCCATCCGCAAAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148356-LRSAM1:NM_001005373:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTGACGGCTGGCAAG
R:
GCTTTGCGGATGGAGGGATC
Band lengths:
295-554
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)