MmuINT0093723 @ mm10
Intron Retention
Gene
ENSMUSG00000024940 | Ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:MGI Symbol;Acc:MGI:1101355]
Coordinates
chr19:5748870-5751074:+
Coord C1 exon
chr19:5748870-5748968
Coord A exon
chr19:5748969-5750948
Coord C2 exon
chr19:5750949-5751074
Length
1980 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CCAATCCCCTCATGCCACAGAGA
3' ss Score
6.46
Exon sequences
Seq C1 exon
AGCTCATCTCTCGCCCCTCCCCACCTACCTTCCACCGGTTCCTGCCAGACTTGCCCCCATCCCGAAGTGCAGTGGAGATCGCCCCCACTCAGGTCACAG
Seq A exon
GTAAGGCCTGCCATCAGGGCCACAGCCTGGATAGGCCGCACATCCAGCTTGGTTTTCCTCCTTCCAACACTCCGTAGGCTAGCGAGCGGGCTAGCACTTGCCCAGAACTTGGAGCCAGGGAAGGTCCAGTGAGCAGGAGAGGTGTCGCTGTACTTTTCCAGCGGCCTGTTGGTATGATGGCCAGCTCAATCTGAGAGTCTTCATCAGTCAACTTGTACTTATTGAGCACCTACTATGTGCCCCCCAAATAAACCCCAACCAAAGCAAACAGATCAAGCCAGGTGTGGTGGCTCACACCTGTAATCTCAATACTCAGGAAGTGAAGGCAGAAGGATTGCCTAGAGTTCAAGATCAGCCTGGGCTATAGTATGAGACCCACAAAATAGAGCAATAATTAAAGCCTAGCATGTCTCATAAATGCTACAAAAAGATAAGTCAGGAAGACGGGAAGTCTGAAGATTGTAATAGTAGGTAACAATGAGAGGTTGTGGGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTATGTAGGGCTTAAAAGATTGCTAGACATTCAAGAGAAGTAGGGAGGGGAGGGACATGCAGAGTCAGAAGAAGAACATTCCAGGGAGGTTAAATCTGGGCAAAGGTGTAGGAAGTATGAATCATTGGTGGAGGAGGGAGAAACCACAGAGAAGCAGGGGGAGCCAGCTCATGGGGCCGCCATTACAGGCTCGGGGTTCGTGCCAAAGGGTATGAGAAGCGTCTGCAAGGACGTAGGCATAGGAATGATTGCCAGCACGGACTGAACTGTCTCTCTGCCAGGCTCTATGTGAAGAACTTCACAGACAGCATCAGCCTGCTCTCTTACTCTGAAGGGGAAATGCTTGCCTCATTTTCCAGATGAAAAAGGCCCAGGTTCAGAGAGGTTTAGCAGTTTGTCCCAGGTCACAGAGAAGCTAGATGGAGCCTATGTCATAGGGACTCCAAGGCCACAACTATTGACCCTGACTGAAACCCTGAGCCTAGATGAGCTTATGAGATGAGGGGCTCAGGTGGAAGGTGACTACCCCTGGGGATTGTGGAAATGTGGAGGACAAGGTGACTGGGAGGGGAGCGAGAAAGCCTATGGACAGGTGCAAGGCAGAGAGCAGCCTGCAAGGGCCCGCTGGCCAGGTGTATTCCGGCAGAGCTGAGTTTAGCATCACCCTGGGCTTCGTGAAAGAGGTGGGGATCAAAAGGGAGAGGAGGAAGTGGAGCTTATAAACCCGAGGGCGAGCAGAGCCCCCCATCTGAGCATCTGGACACAGCTGTGTTCCTAGGACTGACTGGAATCTGTCTTGGGAGGGCAGACAATCGACCATTTGGGTGGAAAATGGAGGACCCACGTCCTTGGAGCAAGGGGTGTTGATGTCACTGGCTAGAAGATAATAGAAAACCTGAAGCTGCAGGGTTTAAACTATTGAGGGGACTGGGAAGAACATTGTCTCAGAGACTCTTGCAAAAGAGTATTAAGAACATAGGACAGCTGGGCGTGGTGGCACACACCTTTAGTCCCAGCACTCAGGAGGCAGAGGCAGGTGGATTTCTTAGTTCGAGGCCAGCCTGGTCTACAAAGTGAGTTCCAGGACAGCCAGGGCTACACAGAGAAACCCTGTCTCGAAAAAAACAAAAAGAACATAGGGCACTTCGCTGTTGTGGTTTGATTTGAGGTGACAGGGGTCAGGCTCTTAGAATCCTAGGCAGGCATGAAAGTAAGGAAGGTGGCAGGGATGGCAAGGACACCGGAGTCCTGTTTGGAGACTTTCTGGAACATTGGTGTTAGTATTACTTGAGATAAAGTTTAGGAAATCCTAGGATTTAAATACCCGTGTGCAGAAGCCAGAGGGCTCTCCGGGTCAGTAGGGTTGGCGTGTCAGTCTCTGCCTCTGGGGTGTGGCAGAAAACACCTATTCCCTGATCAGCCCTTGACCCAATCCCCTCATGCCACAG
Seq C2 exon
AGACCGATGAGTGCCGATTGAACCAGAATATCTGTGGCCATGGACAGTGTGTGCCTGGCCCCTCGGATTACTCCTGCCACTGCAACGCTGGCTACCGGTCACACCCGCAGCACCGCTACTGTGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024940:ENSMUST00000081496:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.023
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=86.0),PF0764510=EGF_CA=PU(0.1=0.0)
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:
AGCTCATCTCTCGCCCCTC
R:
AACACAGTAGCGGTGCTGC
Band lengths:
224-2204
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