MmuINT0093755 @ mm10
Intron Retention
Gene
ENSMUSG00000040488 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:MGI Symbol;Acc:MGI:1321395]
Coordinates
chr7:27322289-27322936:-
Coord C1 exon
chr7:27322811-27322936
Coord A exon
chr7:27322412-27322810
Coord C2 exon
chr7:27322289-27322411
Length
399 bp
Sequences
Splice sites
5' ss Seq
TGGGTCAGT
5' ss Score
4.68
3' ss Seq
TCGGATGCCCTGTCCTGCAGACG
3' ss Score
7.38
Exon sequences
Seq C1 exon
ACATAAATGAGTGTCTGGAAGGCGACTTCTGCTTCCCCCACGGAGAGTGCCTCAACACTGATGGCTCCTTTACCTGTACCTGTGCCCCTGGCTACCGGCCTGGACCTCGTGGAGCATCTTGTCTGG
Seq A exon
GTCAGTCCCCAGGCCGTACCTGAGCGTGGAAAGAGTGGGCTTTCAGCAGGAAAGGGAGGAGCAAGGGAAAGAGGGCAGAAAAGGAACTCTGGATCTTTGAGGGTTTGGGGAATCTACATGGATCACTGAGGGGTAGCTTTTTTGAGGCCTGGAGGCGGCAATCAAAGAGGAACTGGATGTGTCAGGAAGTTGGAAGCTGACAGCTGGATAGTGATTGACAGGGGCCTCCGACTGGAGGCGGGGCTTACAAGCAAAGGTGGGGCCTGAAACAGATTGGGTGAGGTCTTCCTTTGAGGCTTTGGGACTTGGAGGGTTGGGACGGGGGAACTGAAGGGGTGTGGCCTAGGATATTAAGCAGAGGAGGAGGTGGGCCTGGGTTTCGGATGCCCTGTCCTGCAG
Seq C2 exon
ACGTGGACGAGTGCAGCGAAGAGGATCTTTGCCAGAGCGGCATCTGTACCAACACTGACGGCTCCTTCGAGTGCATCTGTCCTCCTGGACACCGCGCTGGCCCTGACCTTGCCTCCTGCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040488:ENSMUST00000038618:20
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:
PF0764510=EGF_CA=WD(100=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.2),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AATGAGTGTCTGGAAGGCGAC
R:
AGGAGGCAAGGTCAGGGC
Band lengths:
238-637
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