MmuINT0089775 @ mm9
Intron Retention
Gene
ENSMUSG00000026840 | Lamc3
Description
laminin gamma 3 [Source:MGI Symbol;Acc:MGI:1344394]
Coordinates
chr2:31786154-31787545:+
Coord C1 exon
chr2:31786154-31786301
Coord A exon
chr2:31786302-31787401
Coord C2 exon
chr2:31787402-31787545
Length
1100 bp
Sequences
Splice sites
5' ss Seq
ATGGTCAGT
5' ss Score
6.57
3' ss Seq
CCTTCTCCTCAAATCCGCAGAAC
3' ss Score
9.14
Exon sequences
Seq C1 exon
GTACCAGGAGGTGCAGGCAGCTCAGACTGCCCTGGGCATAGCTGTGGCAGAGGCGCTGCCCAAAGCTGAAAAGGCACTGGCCACGGTGAAGCAAGTCATTGGTGACGCAGCCCCACATCTAGGCTTGCTGGTCACCCCTGAAGCAATG
Seq A exon
GTCAGTTCAACATCCCTGGATCTCCTCGTTGGGTGGCAGTAAAGGTTCTAAATAATGGAGCAGCCAGAGGGCCAGATGGAGGCGGGAAGGGCTTCTCGTTAACTGGGAAGTGGCCTGTTGAAACAGGAGGGGTTCTGCCAGTCTTCCATCCCAAGGCTATAACTATGACATGAACAAGGACATCAGAGGGATGGGAGTGATGTGTGCCCCAATTCCCACTCCAGCAGTGACCTTGACCAAGGATGTCCCTCCCTGAGTTCTAGCCACTAGTAACCCTCTATCCCTTGGACTCACCCTCCTGTGGCTTAATTTTAGAGGTGGGAGCTGGAAGGGATCTAGGCAGCCGAGCATTGAACACTCCTCATCCTGCCTAGCTTGTCTGTTGGGGAATCCTGAGCTCTCCAGCCTCAGAAACCCGGCTTTAGTAGAGCACTAAGCCAGCTGTTGGTGCAGCACCTGGGGAGAGTGTGTGCACAGCATGCACAAGGCCCTGGGCTCCACCCTCAACACCAAGGAAGTAAAAGCCAGAAAGAAAGCTATCCAAGTGCGGTTGAGACAGAGGCTGCCTGCGGCTACCGTCTCATGGCTTCCCTTGCTTTCTTTACATGCAATAACCTGGATGACCCAGATACCACTGAGAGCTCGGGATCATACACAGCTACACAGTTCTGCCTTTCTAACATCAGGAACGCTGTATTCTGGAGCACATAGGTTAAGGTTCAGATGGAGGAAGGGTTGTGAGTCTGGGAAGGGGTTCTCTCACCTTGCAAGGAACAAAGGCAGTATACGCACAGGTCAGGCCAGGTAGCAGGAGTCACCCAGGGCTGCCTAGCCAGAAATTGGTGGGGCTGGGGTCTGAGCCTCCACTGGCAAATTCTCCCAGCTTGATTTCTCTGAAACCCTGCTGTATCCTGCCATTGCCTTGCCCCTGAGTATCTGAGGTCCCGGGGACAACAGGAGGCACTCTGAGATCAGGATCAAAAGTTTCAGTTCTGGGCTAGTAGCCACAGGCTGACCCTCAGCACAGTGGGGCACTTTTCCCTGAGCAAAGGGTCTGGTCCTCAGCTCTACCTGAGCCTACCTTCTCCTCAAATCCGCAG
Seq C2 exon
AACTTCCAAGCCAGGGGCCTGAGCTGGAAAGTGAAGGCCCTGGAGCAGAAGCTGGAGCAGAAGGAGCCCGAGGTGGGCCAGTCTGTGGGAGCCCTGCAGGTGGAGGCTGGAAGAGCCTTGGAGAAGATGGAGCCCTTTATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026840-Lamc3:NM_011836:22
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.020 A=NA C2=0.167
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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGCAGGCAGCTCAGACT
R:
GCATAAAGGGCTCCATCTTCTCC
Band lengths:
281-1381
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: