MmuINT0089764 @ mm10
Intron Retention
Gene
ENSMUSG00000026840 | Lamc3
Description
laminin gamma 3 [Source:MGI Symbol;Acc:MGI:1344394]
Coordinates
chr2:31915858-31918616:+
Coord C1 exon
chr2:31915858-31916082
Coord A exon
chr2:31916083-31918427
Coord C2 exon
chr2:31918428-31918616
Length
2345 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
ACAAGTGCCTTGCTCCTTAGGGA
3' ss Score
6.93
Exon sequences
Seq C1 exon
GCCAAGTGCTCTTGTGTGAAGTTCAGCTCACATCGGCCTGGCCCCAGCGTGAGCTTGCCCCTCCAGCCTCTTGGGTGGAGACCTGCTTATGTCCCCAGGGATACACAGGCCAGTTCTGTGAATTCTGTGCTCTGGGATACAAGAGAGAAATACCTCATGGGGGTCCCTATGCCAACTGCATTCCCTGCACCTGCAACCAGCATGGCACCTGTGACCCCAACACAG
Seq A exon
GTAAGTCCCCAGAATCCCATTCCAAAGCTCCCTGAGCTATGCAGACACGGTGGCATGAGGACTGGACCTCACAGATGGCCCTTGGGAGACATGGACACTGGCCTGTCCTTGCCCTGTTCCCTGGGACTTCGCCTATTATAACAAAAGTCCTGAGTGGAACCTAGGGGCCAGGGATTGTATGCACCTGAGGGGGCCTTCAGCCAGCCTCTCTTCAGGCATCTGCCCACGCCTCCTCCACCACCACCACACCCTGCAGGCCCTGGGAAAGGCCCCTCAGAGCCTTGCTTCCCAGCAGGTGCTATGAGAATTACCAGCACAGATAGCAACAGGAGAAAGACATTCAGAGAGTCGCACAGATGACAGGAACTCATGGGTGTTCACCCAAAGCCACAAGCCAAGTGTCCTCACTGCTTGGAAAAGTCACTTCTCTCCCCGAATGTCCCCATCTATACAGTACAGACAGCAGTAGTATACACTGCCCAGGCCATGGAGACAAAGTCCATGAAGGTCAGGAATTGTCTAGATATTTAAAAGAACAGAACGCTCTTTGCACTGAAGTTCAGGGGTAGCTGACGGAGTGAGCCGTGGGTGGGTTCTTTTCCTGGGAGAGACAGATAAATAATATAAAGGAAGGAATAAGATAGTCTCATCCCCTTCCTCCCTAATGTCTTCTCCTTGATTCCTGTAGACATGCAAGTGATATATTCTCCATTATTGTCCCATTTGTTTCCAAGTGGGGTGACCTCATGACCTGTAGGTGACAGAGCCACACCTCCCACCAGCGGTGGTGGCTGTCATTCAGTAGAGCTACTTCTCATACCTACAGAGATACAGAAACCTCTCCAGAGGTCATGTGACCAGGAGGCGCTAGGGGACAGACACAGGCCTTTTCACCTCTGTGTCACAGGCCTTTCGCCCTGCTGCCTCCCCAAGACAGGTGGAATCTCTGATACATAGAACATTGTCCATGGCTCCTGTGCCTGGCAGACATCACCAATTGAGCCTAGATGAAGCCTCGCAACCCTTTCCTGGATAATGCTCCCTGCAGCTCCTGTTGAGGAAACAGAATCTCCTCATGAGATTGAACTGATTTTTCACCCCCACGGAGCCCTTGACTTTGCCACAACTTTCCATTCGGTATAAGTAAGCCTTCGTCTGTAAAATGGGTAGAGCAGCTAGTCTAAGAATCAAGCCTGAGGGTGTGAGCTGAGGCAGGAATTCTCCCTGGCTCTAGGGAATGAAGTTCTCTTCCGTTCTCCTCACAGCCATGGCTGGACACTGCTGGTTGCCTCCTGTAGGGCCCCTCTTGGGTCCCCATGGTGAGTCACGACCCTAGGCTCTGAGCAGACTCCAGGGGTTGCTGGACTGGAGAAGGGGGTCTGTGGTATCCTCCGTCTTCCAGTACCAAGAGTTGCCATACCAATAGCATGTATATACTATAGGTCCTGTACAGAGTGAGCCCCCGAAAGACTGGAAGCCTGAGCCAGGGTCTCCCTTTAGGTGGGGCCCTCAAGGTGAAGAGGATTATTGCTGTGCCTTCCATTGGTCGGGAGAGCTGTGAGACAGGAATAGTGAACAGTGTCCAATTGTTGTCCCTGCCCACCCTTGCCCCCCACCCTGGCTCTGCCACCCCATCCATCCACTCCTGCCAGCATATTTGTGGTGTGGCCTCTGTTACCATCCATCCCAACTTCTAAGACAGGGATCTGAGGTGCAAGGTGGCCACCCAGCCAGTAGGTGGCAGAGCCACACCTCTTACCCACCGAGGGGCGGGTTAGAAGGTTTTCCCAGCTCACACACACAAACCTTAAGTGAACCCAGGCAGTCTGGCTCAGCCGGGATTTACCCCAAGCTCCTGTCTCTCTAGTCTACCAATGTGTGTCCTGCAACTCCTCCACCAGGATACTCACTGTCTAGGGTAGCAGTTCTCAATCTGTAAGTCGCAATGTCTTGGCAAACCTCTATCTCCAAAAATCTTTACATTACAATTCCTAGCTGTAGTAGCAAAATTACAGTTATAAAGTAGCAACAGAAAAATCTTTATGGTTGGAGGTCACCACATCATGAGGAACTGTGTTAAAGAGTCGCAGCATGCCGGGCAGTGGTGGCGCTTGCCTTTAATCCCAGCACTTGGGAGGCAGAGGCAGGTGGATTTCTGAGTTTGAGGCCAGCCTAGTCTACAGAGTGAGTTCCAGGACAGCCAGAGCGACACAGAGAAACCCTGTCTTGAAAAACCAAAAAAAAAAAAAAAAAAAAGAATCGCAGCATTAGGAATTAGGAAGGTTGAGAACCACTGTTCCAGGGGCTTCTGGACTGAGATAGTGAACAAGTGCCTTGCTCCTTAG
Seq C2 exon
GGATCTGCCTGTGTGGCCACCACACCGAGGGTCCATCCTGTGAGCGGTGCATGCCAGGTTTCTACGGTAACGCCTTCTCAGGCCGTGCTGATGATTGCCAGCCCTGTCCGTGCCCTGGCCAATCAGCCTGTGCAACCATCCCAGAGAGTGGAGATGTGGTGTGCACACACTGCCCTCCTGGTCAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000026840:ENSMUST00000028187:12
Average complexity
IR
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:
PF0005213=Laminin_B=PD(19.3=34.2),PF0005319=Laminin_EGF=PU(28.3=17.1)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(69.6=50.0),PF0005319=Laminin_EGF=PU(52.8=43.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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