MmuINT0093467 @ mm9
Intron Retention
Gene
ENSMUSG00000026792 | Lrsam1
Description
leucine rich repeat and sterile alpha motif containing 1 [Source:MGI Symbol;Acc:MGI:2684789]
Coordinates
chr2:32815037-32816771:-
Coord C1 exon
chr2:32816564-32816771
Coord A exon
chr2:32815134-32816563
Coord C2 exon
chr2:32815037-32815133
Length
1430 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGC
5' ss Score
4.9
3' ss Seq
ATCTCTCTGCCGTCCTCTAGGGT
3' ss Score
10.75
Exon sequences
Seq C1 exon
TCGAGACTTTGTCATCCTGAGTTGCGTGTCTTTCTGAAATTTAAAGTTTCGGTGCTCACTTCTATGTTTGAAGGAGACCGGACACCAGCTCAGCTTTTGGGGGCCAATGGTTTGTATCTGTGGCCAAGTCTTCGGAGTGACTGGCCTACCTTGAGGTCCACCCAAGAATCGGAACATCGGTGGAGGACCTCCCCATCCACAGAGCCAG
Seq A exon
GTTAGCCGCTGGCCAGCCCTGCCAGGGAAGGATGGGTGTGGTTCTTCCCAGCCAAGCTGGACCATCAGGAAAGTTCAAACCAGAACTGAACGAGCCCTGCTGAGAACGGTGAGGGAGGGGGAATTGGCAGAGATAGTCATTGAAGAAGGTATTTGGAAATGTAGATCTGGAGGATGGGGGCGAGGGAGGCTAGTCATTAGTGAGCCATCTGTAAGGGATTTAAGTCGTGGCCATCAGATAGGGATGGAGGGAGCTGTCTCTCAGGAGTGCTGCAATTGAGTGCGGAGAGTCCTGAGCAGGCCCTGCAGGCCCAGCAACCTCCTCTGACAGCCCACGCCCACAAATGGAGACCTGAAATCCCTCAGGACCACATGTGTCCTCTACTGCAAGGCTCCTCCAGCCCTCTTCTCCTTAGCAACTGTAATAGTACCTGAGTGCATTTGTCATGTGTGTGGTACCCTGTGGCAGAGTCTATGGCATAGACCTGACATACATGAAGTCACTGACCCCACAGAGGCCAGCATTGGCAACATTGCTCCATATTACAAATGAGGAAACCGGCTCCGACCAGTGACACAAAGTGACACAGCTAATGTCTTAGGTGTCAGAGCCCATGCCGTGAGTTACACACTTCCTCCAAATGATTATGTCCTTCCTATTGCTGGCCCTTAGACAGCACTGGAAGTTGCAGCCAGCTATGGGCAGCCAGCTACTGAATTCAGGACACAATGATTAACTTGGCTAAACTGGGAGGTCCAAGGAGCCGTGCAAGCGGCACAGGATCAGGACTTGAAAGGCAAGTGTCCCAGCCTGGTGTTTCTACAACCCAGGTCATATCACCAGATGAATGACCTTACTCAGCATCGGATTCTCCACGGGGCTGTAAGGAGAACCAAATGAGCAGTAGCTGGAAGCCTGCTAAGGTGCCTGAAGATTGCATTTTGATTTTTGCTTAACTCATAGATCTCTCTAGTATTGATATAGTTGAGTTCCCCCAAGTCACGGCTACCTCCAGTTTGGTCTTGATGGTTCCATCCTGACAATTTCCAGAGCTGGAAGTGACTCATCAGCTGAGTCTGTCCAGAGTCTTCAGAGAACATCCTTGGAAGGCACCTGGGGGAATCTTCCCTTGGTGGGGGAAACGCTTAGCACTGGGAGGGTGATGCCGGCGCCGCAGAGGGGCAGTGGCAAAGTAGGTCGAGCCCAGAGTACTTGGCGTGTTCTGTTCTTTCTACTCTAGGCTTTGCTTTGTCAGTAAAACAAAGTGTTGGGCTCTGTCGTGTGGGCTCAGGGCCCAGCTGGATGAGGTAGACAGCCCGGCCCACATGGAACGCACAGTCTTGCAGACAGCTGCTGCACTGCTGAGCTGCCTGTCTGCAGGTCGGACGCAGTGCAAGTTCCCAGGCGCTGATCTCTCTGCCGTCCTCTAG
Seq C2 exon
GGTCCAGAAGAGCTCACACCGGAGGATGCCCCTCTTCTTTCGGAAGCGGAAACCCAGTGAGGAGGCTCGAAAACGCCTGGAGTACCAGATGTGTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026792-Lrsam1:NM_199302:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.000
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGAGACTTTGTCATCCTGAGT
R:
TGGTACTCCAGGCGTTTTCGA
Band lengths:
295-1725
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: