HsaINT0097323 @ hg19
Intron Retention
Gene
ENSG00000148356 | LRSAM1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:HGNC Symbol;Acc:25135]
Coordinates
chr9:130219595-130221350:+
Coord C1 exon
chr9:130219595-130219672
Coord A exon
chr9:130219673-130221281
Coord C2 exon
chr9:130221282-130221350
Length
1609 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
CAGGGGTCTTTCTTCTGCAGGTT
3' ss Score
9.74
Exon sequences
Seq C1 exon
GTGCTGATCGTCCACACGAATCACCTCACTTCCCTGCTTCCCAAATCCTGCAGCCTCCTGAGTCTGGCAACCATCAAG
Seq A exon
GTACTGGGCCCTCCTCCCAGGCAGCTGGGGCTCTGCATGGGGTTCCACGCGGCAGCTGAGCGCCTGCTCCTTTTGGGCTGCCTCTTGCATGTCAGAGGGGCCCAATCTACCAGTCAGTCTGGGATTTGATCAGTATGGTTTACTGGATACTTCTGTGGGCTGTGTGTGGGTTAGGGTGACAAAGATGACCAGCCACAGGCCCTGTCCCTGGGGAGTTTACATGCCAGGAGGAAAGCCAAGTGACAGCCTCATGGCGAGTCAGCTAGCAGAGGGCGAGGAGACTGATGGTCCCAGGCAAGAAGGAAGAGGAGGGACGCGCAGGTGATCTGGAAGGACTCCCTGCTGACTGTGAGCTCCTCCCCGGATGGGCTGGGAGGCATTCACAACATGTGGGAGGTGTGAGCCCAGGGTTGTTATGCGCAGACCTGAGCTTGGGAGAGTGATATGCACCTTCAGAGGAGGCCGGCAGCACAGGTGTCAGCCCAGCAGCACAGGCCCAATCTGTTATACTATATTGTTTAGGGAATAATGACAAGAGAAAAGCCTGTATGTGTTCACTACAGATGCTTTCTTTCTTTTTTTTTTTTTTAATATTTTGCACCTGAGTTTGGTTGAATCCATAGATATGGAGGGTACCTGTGTGTGCACATGTATAAATATTTCTCCAAGGCCTTTTTTGTGCATTTTCATTTTTAAAAAATTAGCAGTCAGTCGTGGTGGCTCACACCCATAATCCTAGCACTTTGGGAGGCCAAGGCGGGTGGGTCACTTGAGGTCAGGAGTTCAAGACCAGCCTGGCCAACATGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGCGGTGGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAAGCGGAGCTTGCAGTGAGCCGAGATTGCGCCACTGCAGTCCGCAGTCCGGCGTGGGCGACAGAGCGAGACTTCGTCTCAAAAACAAAACAAAACAAAACAAAACAAAACAAAAAAAAACACCAGCAGAGCATGTTGGCTTGTGCTTGTAATCCCAGCTACTTGGGAGGCTGAGGCACGAGAATCACTTGAACCCAGGAGGTGGAGGTTGCAGTGAGCTGAGGTCGTGCCACTGCACTCCAGCCTGGGTGACAGAGTGAGACTCTGTCTCAAAATAAAACAAAATAAAATAAAATTAAATTAAAAATTAGCAAGTACAGTTAAGCAAAGGGGGAAACATCTATAATTTTACACTGTGGAGTACCACTGTCAATATTTTATCGCATATTTGAAAGTCTTACATATTTATACAATGGAGTGTTTCTTTTTAACATATTAGTATCTAGGCATACTGTTTTATAGCATAGTTTTTCAGTTAACAGTAAAAATAAATATACATAAAATAAGAAAATGGTATAATGGTTTGAGAAGGAAAATGAGGCGGGAATGATCAACACTGAGTGGGAAAGGAGTGGCAGGCACTCTGTTTCTGCACTGGGGGTGTGAGGTGGCCCCAGCCCCTCCTCAGCGCTCTGGAGCCCGGAGTCTGAGGGACTTTCTCACTTGGAGACTCACAGGGGTCTTTCTTCTGCAG
Seq C2 exon
GTTCTAGATCTCCACGATAATCAGCTGACAGCCCTTCCTGACGATCTGGGGCAGCTGACTGCCCTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148356-LRSAM1:NM_001005373:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF138551=LRR_8=PD(45.1=88.5),PF127992=LRR_4=PU(6.7=11.5)
A:
NA
C2:
PF138551=LRR_8=PD(12.9=34.8),PF139001=GVQW=PU(5.4=8.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
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)