MmuINT0093479 @ mm9
Intron Retention
Gene
ENSMUSG00000026792 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:MGI Symbol;Acc:MGI:2684789]
Coordinates
chr2:32787611-32789430:-
Coord C1 exon
chr2:32789335-32789430
Coord A exon
chr2:32787710-32789334
Coord C2 exon
chr2:32787611-32787709
Length
1625 bp
Sequences
Splice sites
5' ss Seq
CTGGTATGT
5' ss Score
8.14
3' ss Seq
GTAGCTTCTGTTCTTGGCAGGCG
3' ss Score
6.07
Exon sequences
Seq C1 exon
GAGATGGTCTCAGAGCAGCGCTGGGCACTCAGCAACCTGCTCCAGCAGCTCCTGAAAGAGAAGAAGCAGCGGGAAGAGGAACTCCATGGCATCCTG
Seq A exon
GTATGTCCGTGGGCTTCTGTGTGCACGCCTGGACATGCTCACTGCTTTTCAAACGCTTGTCCCATTGTAGCTCACCAAAGGGGAGCGTAAAGGGCAAGGGACAGCGCCACTTGGCAGATGCTTTAGTTTCTTGTGCACCCTTGTTATAAGAGAGAGCATTTACTTTCACTCAACGGTCCATCCTGTGGGGAAGTCGCAGCACCAGAGCTGAGACAGCACAGCATCTCCAGTATCCAAGACACACTGTAATGAACGCACAGCAGATGTTAGCCTCTGCGCACGGCGCTCCCCGGGCCTCAGGACTGGGCTCTCCAGGACAGGACGTGCCGTGCTGCGAGCAGACCAGCACTTTTAGCAGGAGTGGCCTAACCCTTCTCTGTGGCTAGTTGTTTTTACTCTGATGTACATCAGGTGGGCTGGGCCCCACTTACTAACGTTGCTCCAGACACTTGAGTGTCTGGTGCCTACACACTGAGGGCCAGGGCTGGAAAGATGGAATCACTGCTATCTGTGACTGTCTCAAAGGTCCCCCCAGGCCAGTTGAGAAGAGTGAGTGAGGCCGGCTTCTGCGGAGCACACACAGCCCATCCAAAGTGACCTGGCCCCCATGGCGCCTCAGTAGTGTGTGCCTGCTGCCCGTGCCCTCAGCAGGCTAAGGGAGGAAGCCCCAGGCTAGCATACAGGCAGGACCATGGTCACAGAAGGAAATCTGCTGGCACAGAGCTACACTGCAATCCCAGCCCCTCAGGGGCTAATGGGGGAAGATGGTGATTTCCAGGTCAGTGCAGGGACATAGCGAGACCCTGTTCCAGAAGAGTAAGGATGCAGAGACAGGACAGCTCAGCGGTGAGAGCACTTGTTGCCAAGCCCAGTGAGCCGAGTCCCTACTGGGCACCCACGTGGTGGAAGGAGAGAACCAATTCCCCGAAGTCGCCCTCTGACTTTGACACATGTGTTACTGGGGTGGAGTGCATGCACAATGCGTTAGTGTAATATACAAATGTAAGGAAGAAAAGCAGAGTTCTTGGCTCTCTCAGGAGGAACCATTAAAGGACCCAGTGTGGCCCACAGCAATGGTTGCTATGGTGATCATTACTCAAAATCACTAGCTCACTGTCTCATCCTGGCACCTGGGGTATCGCCCACCCAGAACAACCCTTTACGAACATTCCCCACACGGCAGAGTGGAGACCTCTCTGCCATTGGAGTGTCAGCCTTATCCAGCAAAACAACCTCTCTAAGAAGTCCTGGGGGTCCTGTAGCCACCTGCCTGGCATCCAAAAGTAGGCATGCCCTTGTTGGGGACAGAGGTGGCTAGCAAGACTTTGCTGTCCCACAAATGGACCAAAAGGAGTCCCTCTCAGAGGTAGTAGCAGAATGTGGGACCTAGTGCGGGAAGCCAGGAGCAGGCTCCTGGTGCCACATGTGTGGCCTTCGCAGCTCCTTGCCCTTCCCCATGCCCACTCCCTGTTGTTGGGCACAGCTGGGCTTCCAGCTTTTGCTCTGTGGCTTAAATCAAGGACAGCGAAAAGTCATGTACTCACAGGAGCATAGTAGGAAACCCCGTGGTCTGGTGGTCTCTGTTTCCTGACCAGAAGCTAACCAGTAGCTTCTGTTCTTGGCAG
Seq C2 exon
GCGGAATTAGAGGCCAAGAGCGAAACGAAGCAGGAAAATTACTGGCTCATCCAGTACCAACGGCTTTTAAACCAGAAGCCTTTGTCCTTGAAACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026792-Lrsam1:NM_199302:20
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:
NO
A:
NA
C2:
NO
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:
GATGGTCTCAGAGCAGCGC
R:
TGCAGTTTCAAGGACAAAGGCT
Band lengths:
192-1817
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: