MmuINT0093481 @ mm9
Intron Retention
Gene
ENSMUSG00000026792 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:MGI Symbol;Acc:MGI:2684789]
Coordinates
chr2:32784172-32785225:-
Coord C1 exon
chr2:32785094-32785225
Coord A exon
chr2:32784254-32785093
Coord C2 exon
chr2:32784172-32784253
Length
840 bp
Sequences
Splice sites
5' ss Seq
AAGGTGGGC
5' ss Score
7.93
3' ss Seq
TTTTTCCTGTTTGGCCACAGGTG
3' ss Score
11.57
Exon sequences
Seq C1 exon
GAAGAAGGCATGGAGCGACGGCTGGTGGCCCTGCTGGTGGAGCTTTCTGCAGAGCACTACCTGCCCCTCTTCGCCCACCACCGCATCTCACTGGACATGCTGAGCCGAATGAGCCCCGGAGATCTGGCTAAG
Seq A exon
GTGGGCAGCCATTGTCTTGGGGGAAGTCAGGAAGGCCCAGTGTGCCTGGACTCACTGTCACAAAGGGGGTATATTTGTTCAGTTTGTAGTGAGTCAAGGTCTGTCCAGGTCAGGTGACTCGAGCTTCTCATGGCCAGAACCGCTGCCCCATTGCCTCTGCTCACCTTTGCCCTCAGCCTGTGCAATGGTGTCACACAGTTATAGCTACGTCCTGAACACAACATGAGCTCCTTTTGTGGAGTTAATCCACCGGCACCTCCCTGGGACGTATACATGCCTGGCATCATTCTTAGTGTCTCACGGCAGCCCATGAACCGGGAACTTGACTCTGAGTGGTCTGGCCTCAGGGTCCCTGCTCTCATCCGTTCTGTTGTCCTGCCTCATCCAGGACAGTGCAGGGCCCATGCTTGGGGGCAGTTCCTGATGACCTTCGGATAGATGCAGGGTTCTGGGCTATGCGCCCAGGCTCTGGGGTGTCGGCTAGAAGGCTCTGACCCTGCTACTTCTCAGCAGAGGAGTTTCAGTAGCTCTCTGTCCTAAGGTCACCAGGCACAGTGACAGTAGTGTCAGGAAAGCATTCAGTAAACACACATGTCACAGGTTTCCTTTGGGGGCTCAGTTCTCCCCTCTGCCACAGAGGCCCGATTGAGCCACCTGCAGGGCTGTGGTTCTACCTTGCCTCATACTGACCACAAGGTCCAGGCCTCCCTGTTTCCAGTGAAGGTGCCGGAGGTGGAGGCTGAGGCAGTCCTATGGGCTGGACAGCATATGACAGCTTAGTAGAGGAGAGCTGGCTCCTTGCCCTCAGCCCTTGGTCTGCTTTTTCCTGTTTGGCCACAG
Seq C2 exon
GTGGGCGTCTCAGAAGCAGGCCTGCAACATGAGATCCTACGGAGAGCCCAGGACCTGCTAGCTGTGCCTAGGGTCCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026792-Lrsam1:NM_199302:22
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:
PF0764712=SAM_2=PU(64.4=86.4)
A:
NA
C2:
PF0764712=SAM_2=PD(32.2=67.9)
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:
GTGGCCCTGCTGGTGGAG
R:
CTGGCTGGACCCTAGGCAC
Band lengths:
190-1030
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: