MmuINT0089771 @ mm9
Intron Retention
Gene
ENSMUSG00000026840 | Lamc3
Description
laminin gamma 3 [Source:MGI Symbol;Acc:MGI:1344394]
Coordinates
chr2:31781058-31781577:+
Coord C1 exon
chr2:31781058-31781263
Coord A exon
chr2:31781264-31781500
Coord C2 exon
chr2:31781501-31781577
Length
237 bp
Sequences
Splice sites
5' ss Seq
CTGGTACCA
5' ss Score
2.73
3' ss Seq
TTTTCTCTCTGCTCCTTAAGGCA
3' ss Score
7.55
Exon sequences
Seq C1 exon
AGACCCGGGGGACCTTCCTGCAGCAGATGGTGGGCCTGGAGGATTCTGTGAAGGCCACTTGGGAGCAGTTGCAGGTGCTGAGAGGGCATGTACACTGTGCCCAGGCTGGAGCTCAGAAGACCTGCATCCAGCTGGCAGAGCTGGAGGAGACATTGCAGTCCTCAGAGGAGGAGGTCCTTCGTGCAGCCTCAGCTCTCTCATTTCTG
Seq A exon
GTACCATGGTCCCCAAACCCTGCTTCCTCTGGAGCCCGTGTAGGAGTCTTTGCCCCCAAGCCCTGTCCTTAACCGATTGCCCATGGTTTGATGTCACCGGCAAACTGGCTCACACCGGGTCTCTCACTGACGGAGAAAGGCACAATATCGACATCATTCTATTTTGCTCAGTCAGCTAGCCGGCTGTAAACCTTGACTTTCCAGGACGAGCCTCAGCTTTTCTCTCTGCTCCTTAAG
Seq C2 exon
GCAAGTCTTCAGAAAGGATCCAGCACACCCACCAATTGGAGTCACCTGGCATCAGAGGCCCAGATCCTTGCCAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026840-Lamc3:NM_011836:19
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=0.041
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACCTTCCTGCAGCAGATG
R:
GCAAGGATCTGGGCCTCTGAT
Band lengths:
268-505
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: