MmuINT0089527 @ mm10
Intron Retention
Gene
ENSMUSG00000019846 | Lama4
Description
laminin, alpha 4 [Source:MGI Symbol;Acc:MGI:109321]
Coordinates
chr10:39080482-39082866:+
Coord C1 exon
chr10:39080482-39080624
Coord A exon
chr10:39080625-39082727
Coord C2 exon
chr10:39082728-39082866
Length
2103 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
GGACTGATTTCTACTTCCAGGAC
3' ss Score
8.02
Exon sequences
Seq C1 exon
ATCTCAATCATTTATCACAACGACAAAAAAATGATTTTGGTGGTGGACAGACGGCACGTTAAGAGCACAGACAATGAGAAGAAAAAGATTCCTTTCACGGACATCTACATCGGAGGTGCGCCCCAAGAAGTCTTACAGTCCAG
Seq A exon
GTAAAGCCTTTTTAATCTATAGCTTTATACTGCTAACAATATATTAATGAGTATTCAATACCTAGGAGAGGTCTTAATTGATACTTTTACATACCTGCACAGGTATAGAACAAACAAATCTGTGAACCTACAGTCCCTCTACAGCCAGCGTTACGACCCTTTTAGATTAGCATCTCACTGTGTAATTTATGTACTTAACTAATATAGCACTACTTTAGAACATAGTCTCCTGCATTATTTCTCAAGGGGAGGAAGAGTAGAACAGAGTGCATTGTGCAAAGACGAAACAGTGTGTGTGCCTTACGTTTGTCTTGGTCTTTAAAGTTATTTCAAACTCTTCAATAGTATCAATATTCAATAGAGAGTATATACACTCTTGAGGGTGTACAAGAGGTCATGGTTTGTGTGTATTGTTCTAGTGAATGCAAAAATTCAGCTCTTACTATACATCAGTTTCATAGAAACAGAGCTGGAGAGAAGGCTCAATGGTTAAGAACACAGGCTACTCTTGCAGAGGTCCTGGGTTTGATTCCCAGCACCCACATGGCAGCTCACAACCATCTATAACTCCAATTCCAGGGTGATCCAGCACCCTCTTCTGACCTCCATGACCACTGTATGCACATGGTGCACAGACATATATACATAGGCAAAAATACCCATATGTATAAAATTAAAATAAATCTCAGAATTAATAAGTGCATACAAACAATGATTCTAAAAACTTAAAAGCAATGCTGAGGTAATCCTGTGTGGTAACTCTCTTTAGAGTAACCTGGAAAGCTTTTCATAAAGCCACTTGCTTTCCTAAAATTATTACTCTTCTGAAGTCAGGCTTCAATGTTTAAAAAAGGAAAAAAAAAATCCTGAACTCAAGTGAGAGCTGATGATGGAGCCCACCCCTCATGTAACAGAAGCACCCCTCACCATGAACATCAAAACCTCTGAGTGACGTTAGTGTTGTGTAATGATTACCTCAGAAGGGTATATGAGATTTCAATTGTTACAAAGTTCTTATTTATCTTGAGTCAAATCCTTTTCATGTTGCAAATTATCATATCTAAAGAAGGCTCTCCCAAGTTTTTCTGAACTAGACACCTTCTTCAGTCCTTCAACCATGTCCCATGGAACCTTGACCACTATGTCAGCCTGCTTACGTATGAAGAGTTAACATATGACAATATTATGAGACAAAGATGTTGTTGTGTTGGTCAATGACTGCTGGGAATGGGGCCTACCCTAAGGAGTGGTTTGTGGGCTGGGTGGTAGTAACACACACCTTTAGTCCCAGAGCTTGGGAGATAGGTCAGCCAGGGCTATAAAGAGAAACCCTGTCTCAAAGACAGAGATAGGGGCTGGGGAGAAAGGTTTGTTTCTTCAGTGAGACTCCCTTGGAGAATACTAATTTTTCAGTTGCAAGTAGCTTTCGATTGAAGATGCTTCTGGGTTAGAGATGGAGATGTATGTCCACATCTCCTTTCAGCTGTAGGACCCCATCTGGCACAGACCTGCACAGCTCTGAGACCCAGCCATCTGACATTGTCTAGGACCTGCCTCTAGCTTTCCTTGATTAGAATATGCTACAAATAAGGCCAAACCCATTAGAAGATGTCTGAAAACCTGAGGTCAAATCCTATCTTGGTATTTATTATGTAAGGGAATAAGTGTCTTTCCAATTTCTATGAAATTGCCAAGAGTAAAGTATTTTCTATCTGTAGCATATCAACTCAATCTCAAGAATCTATAAAAAAAATAAATGAATGGTGGGGGGAGGATATAGGGGGCTTTGGGGATAGCATTTGAAGCGTAAATGAAGAAAATATCTAATAAAAATGCCTTAAAAATGAATGCTACCATTTCCACCTATATCATTTGAGTGTTATAAAAGTAGCAATTGATAATGGAAGTTAAAAGGTTTTGAAAACTATAAAGAAGCAAGCGAGTTGTTTTGACTTGGAGCAGTTTACTACACACAAAGGTTTAACACAGCCACGTGCTTGTCAAAAAAATATGAGACATTGAATGGTTTGAAAGCTACTGAGATTGTAAGTCAACAGATCTCTGATATATATAGTACCAATGAGGACTGATTTCTACTTCCAG
Seq C2 exon
GACCCTAAGAGCACACCTTCCCCTAGATATCAACTTTAGGGGGTGCATGAAGGGGTTCCAGTTCCAAAAGAAAGATTTCAATTTACTGGAGCAGACAGAAACCCTAGGAGTTGGTTATGGATGCCCAGAGGACTCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000019846:ENSMUST00000019992:25
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:
PF0221019=Laminin_G_2=FE(35.6=100)
A:
NA
C2:
PF0221019=Laminin_G_2=PD(18.2=51.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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