HsaINT0097302 @ hg38
Intron Retention
Gene
ENSG00000148356 | LRSAM1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:HGNC Symbol;Acc:HGNC:25135]
Coordinates
chr9:127451486-127452084:+
Coord C1 exon
chr9:127451486-127451669
Coord A exon
chr9:127451670-127451928
Coord C2 exon
chr9:127451929-127452084
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:ENST00000300417:1
Average complexity
IR
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
Mouse
(mm9)
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