MmuINT0089775 @ mm10
Intron Retention
Gene
ENSMUSG00000026840 | Lamc3
Description
laminin gamma 3 [Source:MGI Symbol;Acc:MGI:1344394]
Coordinates
chr2:31930634-31932025:+
Coord C1 exon
chr2:31930634-31930781
Coord A exon
chr2:31930782-31931881
Coord C2 exon
chr2:31931882-31932025
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:ENSMUST00000028187:22
Average complexity
IR
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
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
- 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