RnoINT0087335 @ rn6
Intron Retention
Gene
ENSRNOG00000022312 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:RGD Symbol;Acc:1564403]
Coordinates
chr3:12003297-12003596:-
Coord C1 exon
chr3:12003564-12003596
Coord A exon
chr3:12003366-12003563
Coord C2 exon
chr3:12003297-12003365
Length
198 bp
Sequences
Splice sites
5' ss Seq
CAGCCAGAG
5' ss Score
-8.93
3' ss Seq
CAGACATGTTTGTTCTGTAGGTT
3' ss Score
7.99
Exon sequences
Seq C1 exon
GCCTGCCTGATCTACAGTGTAAGTTCCAGACAG
Seq A exon
CCAGAGCTATGTGGAGAGCCCATCTCAGAAACACAAGCAAACAAACAATAAGTAAATATATAAAAGATTATGAGATTGGATGCAGTGGGCAGGAGGAAGGGTCACCATGAAGCTGCCAGGATGTGAGGTGGCCTTATCACCTGTCAGCTGCTCTGGAGTCTGGGATTTTGGAGGCTGACAGACATGTTTGTTCTGTAG
Seq C2 exon
GTTCTGGATCTCCATGACAACCAGCTGACAGCCCTTCCTGACGATATTGGGCAGCTGACAGCCCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000022312:ENSRNOT00000060186:5
Average complexity
IR
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:
PF127992=LRR_4=PU(0.1=0.0)
A:
NA
C2:
PF127992=LRR_4=FE(55.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCTGCCTGATCTACAGTGTA
R:
CTGCAGGGCTGTCAGCTG
Band lengths:
102-300
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]