HsaINT0097308 @ hg19
Intron Retention
Gene
ENSG00000148356 | LRSAM1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:HGNC Symbol;Acc:25135]
Coordinates
chr9:130243462-130245299:+
Coord C1 exon
chr9:130243462-130243506
Coord A exon
chr9:130243507-130245228
Coord C2 exon
chr9:130245229-130245299
Length
1722 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
ATGGATGGATTTTTTTCTAGAAT
3' ss Score
5.28
Exon sequences
Seq C1 exon
ACAAAAGAAAAGCTCCGAGATTTTGAAATCGCTGGAAAATGAAAG
Seq A exon
GTAAGTGTTCTTCCAGGGGAGGGCAGCATTTTTTTTTTTTTTTTGAGACGGAGTCCTGCACTGTCGCCAGGCTGGAGTGCAGTGGCACAATCTCGGCTCAGTGCAACCCCCGCCGCCCAGGTCCAAGCAATTCCCCTGCCTCAGCCTCCCGAGTAGCTGGGACTATAGGCGCATACCACCACCAGCTAATTTTTTGTATTTTAGTAGAGACGGGGTTTCACCGTGTTAACCAGGATGGTTTCGATCTCCTGACCTCATGATCTGCCCGCCTCGGCCTCACAAAGTACTGGGATTGCAGGCGTGAGCCACTGCTCCCGGCCAAGGAGAGCAGCTTTGAGGGGAGAATGTCTTGTGATTCTCCAGAGGATTATGCCAGGACATTTCCCTAAAGCTATAAGGAGATTCACCTCCTTAGACGATATTTAATTACAAAGAATCATTGTCTTCAAGTTCATTAAAACATACGTACACTCCTGAAAAACATTCAGAGACATGAATAAGGCTAGATATATAATGTCCAACTATATTCCTAGTATAAAAAGTTCAGGCCAGGCGCAGTGGCTCACATCTGTAATCCCAGCACTTTGGGAGGCCGAGGTGGGCAGATCACTTGAGGTCAGGAGTTTGAGACCATCCTGGCCAACATGGCAAAACGCTGTCTCTACTAAAAATCAAAACTTAGCCAGGAGTGGTGGCAGGCGCCTATGGTTCCAGCTAAAAAAAAAAAGAAATTCAGAAAAAAAATCTAAATTTCTGGAAAGAAAAATTATTTAGTTACATAAATTATGTATGGAGGAATAACCTGCAGCCATTAAATGTCTTATTGAATAATATTTCTCATTAAGGGAAAACATAACATATTGCTAATGGAAAAAGTGACAGGCTATATTTATAGCAGAATTTTTAGTATATCTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAGTGGCACGATCTCGGCTCACTGCAACCTCCACCTCCCAGGTTCAGGCGATTCTCCTGCCTCAGCATCCCGAGTAGCTGGGATTATAGGCGCATACCACCAGGTCCGGCTGATTTTTGTATTTTTAGTAGAGATGGAGTTTCACCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAAGTCATCCGCCTGCCTCAGGCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGCACCCGGCCATGTGACTATTTGTGAAGGAAATATTTAAAGGACATTTTGCTAGGTGCCAACTTACCTTCCCAAAAACATTCTGCCAGTTTACACTCCTCTCAGCAGTGTAGGAAAGTGCCCATTTCTCCACCACCATCACCATCACAAACAGTTACCAGTTTTCTTACTGTCAACCAACCTAGTAGGTGAAAAGATTTTACTTTCTTTAGTTACCAGTAATGTTAAGCATCTTTCCAGATGTTTATTGATCACTTGAATTTCAGCATTGGCTATTTGCTTCTTTTGCCCATTTTCTAAGGGAGCGTCCATCTTTTTACACAAGATACTCGAACTACAGGCTGAAGGCGAACAGAGGGCCCCAAGGGTTGCTTGTGATGCGGTAGGCATCCAGAGAGCCCATCTAGGTGTAGGTTGCCAAATCAAGGAGGCCTTCCTGGAGGAGGTGGTGTTCATCTGCTGGGATTCCCTGTTGGAAATGTTAAATTTGCTGAATGAATGGATGGATTTTTTTCTAG
Seq C2 exon
AATAAGAATGGAACAGTTGATGTCCATAACCCAGGAGGAGACTGAGAGCCTGCGGCGACGTGACGTTGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148356-LRSAM1:NM_001005373:15
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.810
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF136461=HEAT_2=PU(21.4=84.0)
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)