MmuINT0093483 @ mm10
Intron Retention
Gene
ENSMUSG00000026792 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:MGI Symbol;Acc:MGI:2684789]
Coordinates
chr2:32925220-32928130:-
Coord C1 exon
chr2:32927985-32928130
Coord A exon
chr2:32926902-32927984
Coord C2 exon
chr2:32925220-32926901
Length
1083 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGT
5' ss Score
9.82
3' ss Seq
TGCTGCTGCTCTCTCCGCAGGCC
3' ss Score
12.52
Exon sequences
Seq C1 exon
AGTTGAAACCACTCGAGAATGAGGTCCTTGGTGCCCTCGAGCCCCCCACAGCTCCCCGGGAGCTCCAAGAGTCAGTGCGACCGTCCGCCCCCCCAGCTGAACTGGACATGCCGACCTCAGAGTGTGTTGTGTGCCTGGAACGTGAA
Seq A exon
GTAAGTGTGGGGAGACACCAAAATGACCCATGTTCCATGACCCAGATATGCGCAATGCTGACATTGTCTAGAGTCCATTTTCCCCAGAGAAGGATTTTTCCCTCAGCTTATTAACTATATTAGGGAAAATTTCCTCAGGCATGACTCACCAAGAACATGGTTTTCCCGGCCAGGCCTTTGTAAGATTGTTGCAAAATTAACACTTATTGCAAAAAGTAAACATACCAGTGCTTAAAGCACAGGTCCTCCCTCCTGCACAGTTGCTAAGGGAGCCGGGGCAGGGCACGGCAGGTATGCCTGCAGCCGTACTTAATGAGAGATGAAAAAGGCAAAAGCCCTGTGAGTCTGAGGCTATGGAGCAAGACCCTGTGTCAAGAAACCCAAAAGGGGCTGGAGAGATGGCTCACACTCACTGCCCTTCCCTGTACCATGTCGGGTGGCTCATAACGTCAGGGGATCCCACACCCCCTTCTACACTTCCCGAGTAGAATACACACATGAGTTACTAAGGGGGCTGCTGTAGCAGCTCGGTAGCTCTCTGACCTTCAGCAGACTCCGGGGTGCTATGCGGCGGAGGGCACAGTGGTTAGAACTGTAACCAAGGCACTGTCCTCAGGCTCTGAAAGGGACTCCCAATTTCTTGATATGATACATGACTTTGAAGCAATTGGAGACTTCTCAGGCCATGTGCATACTGAGGGGTCTTGCTAAGACAGAGTCAGGGAACACATACGAGGCTAGTGACTATAAGGTGGAAGTCATTTTAGGCTAGGCATCATACTTTGGCAAGTGTGAACACAAAATAATTACAAATAGGTGGAGGGCCAGGTAAGCAGTACACGCCTGGCATCCCAGCTGGGGGTGGAGGCAGCTCAGTAGCAGGGCACTCAGCCTGGCATGCACTGGAGGAAAGAGCTTTTAGATTGTAGATATTTGAATGCTATTACAATCCATGGAAAAACAGGTACAAAACTGCCAACAGGCCTGACTAGGTTTTCACATCCACTGGCATCTCTCGGGGCTTTGATGTGGTCATGGCTCCAGAACTGAGCGGTCAGGATGTTGCTGCTGCTCTCTCCGCAG
Seq C2 exon
GCCCAGATGGTCTTCCTCACCTGTGGCCACGTCTGCTGCTGTCAGCAGTGCTGCCAGCCTCTGCGCACCTGCCCACTGTGCCGCCAGGAGATCTCCCAGCGCCTCCGGATCTACCACAGCAGCTGAAGGCACAGCACCTACCAGCCCTGGCCCTTCCTTGGTACCATCTCCACCACTGCTGGACTCCCACCTACCCTCATTCCCCAGACTAGGGCAAGACTGCCATAGGCCTTTGTCACCCACCACCTGCCACCCCGACCCCCACTGCTCTGAGCACTAGGCAGGCAGGTGGAATGTTCCTGGCCTGTGACATAGCTATTCTGAACAGTGAACAAAAGACAGGGCAAATCTGCTGGTGGTGGAGCCTTGGGGCAGGGGGCCAAGGTCCAGCGTAGGGAGGTGGCCCTGCAGGACTCAGGAATCCATGTTAGTAGCCAAGCCTCAGCGCTACACCCAGCTGTCTGCCCCTCCTGGAGGTGTCCATATCTGTGGAATGTATCAGCCATCCCGTCCTAAGGTGCACCAGTGTCTCTGGGAAGGGGTGGGTTGTGCAAGACTCCCCAGCACCCTTTTGCTTCTTTCTGAACACCCACCCTCCCATATCTGCATCCTTAGCCTACACAGGCAGGTTGATTCAAAACAGGAGCACCAGTAAATCTGACTCCTTGCAGAGTCACCCCTAGGTCCATGAGAACTTGGGAGGGGTAGGAGTAGGCAGAGTCCGGGGAGAGGGCAGCTCTTCTGGGGAAAAGGGCGAGAGCTGCTGCCCCTGGGTCAGAGGGAAGGCAACAGAAACATTGCCCCATGGAGAGTTAGGCAACACCCTCTTGAAAGAGGGCGAGGGGAACAGAGCCAGAGATGGGGGTCTCATTATTTATTTATAAGTAGCCTGTGCTCATGGGACAGGTTGTGTTCCTGCAATGATTATCCTAGGTGAGGGGGCTGCTGAGGCAACTGGAAGGCATGTTAACTTTCAGAGGGGCAGCCCACCCTCACCAGCTGTAGTGAAGGGTTCCATGTGACATGGCACCCTACTGCCCTCCCCAGTATAGTGTATATGGCCTACAGCATGTGCTCAACAAATATTACTACTTGACTGGCTCTGGGGGAACTAGACATTAGCACCTAGCTCAGGCCTGGAGGCCACCCTCATGGTGGACACATGGGACTGATGAGCCATCAGAAGGCTAGTCACCTGAAAGCTCTATGGCCTCTCCCCTTCTTTCTGAGCCTCAGTTTCTCCCTCTAAAATAGGGGATTGTAAGAATGAGTTAGAGAAAGAGGCCTCAGTACATTAGTTGTCATTTGGAAGTCTGGCTCCCCAGATCTCACAGAGCCAGGCCAGTACATGTAATCAAAGTACTGAGGAAGCTGAAGCCGGCAGACCCTGGGACTCACCAGTCAGCCAAGCTAACCGAGTTAGTGAGTTCCAGGCTAATGAGACCTCATCTCAAAACACGAGGCGGAATGATCCGAGATCCTTTGGCTTCCACATGCACATGTGAATTTGTACCTGTACACACGTGCAGGAACACACTCAGATCAGGGGCCTGGTAGCTCATATGATGAGCCCAAGAGATCTGGGATGAATGGATCCCTAGATACGGTAGGCCCAGATCTCCCCCACCCCAGCAGCACATGAGGAAATGAGCTTTAAATAAAGCGTTTATTGATGAGCAGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026792:ENSMUST00000113200:25
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.510 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF139201=zf-C3HC4_3=PU(23.9=22.4)
A:
NA
C2:
PF139201=zf-C3HC4_3=PD(71.7=78.6)
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:
GAGTGTGTTGTGTGCCTGGAA
R:
GCTATGTCACAGGCCAGGAAC
Band lengths:
343-1426
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types