HsaINT0097314 @ hg19
Intron Retention
Gene
ENSG00000148356 | LRSAM1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:HGNC Symbol;Acc:25135]
Coordinates
chr9:130253494-130255176:+
Coord C1 exon
chr9:130253494-130253574
Coord A exon
chr9:130253575-130255080
Coord C2 exon
chr9:130255081-130255176
Length
1506 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
GGGTGTGGTCTTGTTCGCAGGAG
3' ss Score
7.17
Exon sequences
Seq C1 exon
ATTAAGTTAATAGAAACTGAGTTATTGCAGCTGACACAGCTGGAGTTAAAGAGGAAGTCCCTGGACACAGAGTCACTCCAG
Seq A exon
GTATGTAGGGCTCCCTGCCCCTGCCCTCCTTCACGTGGTGAGACCCCCACCTGGTGCTCCCTCCCAGCCTCTGGCAGCTGCTCACCAGCCCCTGGGAGTCAAGGGCTTCCCCAGCAGACAGAGGGCAGAGCTCCTCTGTGGCTGTGACACCAGAGGACACCCCCCAGCCCCAGAAGGCCCAGCGCAGGCCAAGGTTAGAGGTGGTCAGCCTGTTGCGAGGCAGGAGGGTCAGAGGAAGGAGGGTTTCATTGCCAAGGCTCCCCTGCTCATCTCCATCACTGTGTCTCCTGTGCTGGGTGCGGGCCCGCCGCTGAGCTCCTGTCTCTCTCTGTAGGCCGTGCTTTAGGCCCCCAGGCACACATCCTCCAGGGCTGGAGCTTTTGGGTGTCCCGGGTTGTCTGGAGGAGAGGGCCCAGCCGCATCTGTGTAACTCCCTGCAGGCAGCATCTCTGGGGCTCCAGCCCGGGAGTCCTGCGCACACAGATGAGAGGGCAGCAGGGACTGGCAGCTGGCGTCCTGGACTGGATGCCTGGGAGCCGGGTGTGGCCCAGCACAGCCCTGCTGTGCAACTTTGGCAGGTGGGGGAGGAGAGGCAGCCCTTTCCCCTCTCTGAACCTCAGCCTCTCCAGCTGCAGACGGAGGGCTGGATGGGATGGTGTGTGAGGACATGTGCCTGTGCCAGGAGTTTGAGCAGAGCCTTCGGTCTGTCACTGTCCCTGTGTCTGTTCTCAGTGGAGAAGTCTCAAGCCATCCCATGGACTCCTCAGTGCAGTGAAGGGTCTGGGATCTGGATCCCTGGTCTCAGGTGCACCGCAGGTGTGCTGTGTGCCCTTAGACAGGCCTCTGCCCCTCCAGGCCTTCTTCCCCTACTCCATAAGATGGCAGCGGTCCTCCAGGCCCAGCCTGTGCCATCAGGCCATCGGAGAAGGCTGAGCTAGCAAGGGAAAGCCCTTTGTGAGCCTTGAAATGATCTCCAGAGATGAGGGGACTGGGACTGCTCTCAGAGAAGCTGCGGTCATCATGCCTGGCGGGTGCCCTAGTCCCTGCCCACAAGTGTGGCAGGGCTCTGGCTGTTGGGGCCCCCATGGGGTTTCCAAGAGCAGGCGCAGGAGTGAAGCAGGGACCCCAGGCTCTGGTTTGCACGCACCTCCATTTGTGTGGGGCCCCACACTGCTCCCCGCCATTTGCTTCTGCCCATGTGCTCTGTTGTCTGGGAGACCAAAGGCAGGCACCTGTGGCTTGTCATTTCTTTTGTTTGATGTTTCTTACCATCCCATTGTCATCAGTCACCAGGATCCCATGCCTGACTTAACCCCACAAGGAAGAGAGATGCGGGCTTAGGGTAAGGGGGCAGAAGGGCCTCTTAGCTTTGTCCCCCAACGCAGCCTGGAGGCATTGGGCAGAGAACCGAGTGAGCGGGAGGCCAGGCCCTTCTCCATCCTGCCACTGCGGGACTCCTGCGCTGCCGCCAGCTCACGGTGGTGCGGGGTGTGGTCTTGTTCGCAG
Seq C2 exon
GAGATGATCTCGGAGCAGCGCTGGGCCCTCAGCTCCCTGCTCCAGCAGCTGCTCAAAGAGAAGCAGCAGCGAGAGGAAGAGCTCCGGGAAATCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148356-LRSAM1:NM_001005373:20
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.016
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
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
- 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)