MmuINT0093725 @ mm9
Intron Retention
Gene
ENSMUSG00000024940 | Ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:MGI Symbol;Acc:MGI:1101355]
Coordinates
chr19:5751172-5751527:+
Coord C1 exon
chr19:5751172-5751303
Coord A exon
chr19:5751304-5751398
Coord C2 exon
chr19:5751399-5751527
Length
95 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
CGCACCCTGTCTTTGCTCAGACC
3' ss Score
7.57
Exon sequences
Seq C1 exon
ATGTGAACGAGTGCGAGGCAGAGCCCTGCGGCCCCGGGAAAGGCATCTGTATGAACACTGGTGGCTCCTACAATTGTCACTGCAACCGAGGCTACCGCCTCCACGTGGGTGCAGGGGGCCGCTCGTGCGTGG
Seq A exon
GTGAGCGCAACCAGCTCCTGGCTAACCCGGGTATACTGGGTGGGACCAGCTCCTACTGCCCGCCCCACGCCCCATCGCACCCTGTCTTTGCTCAG
Seq C2 exon
ACCTGAACGAGTGCACCAAGCCTCACCTGTGTGGGGACGGTGGCTTCTGCATCAACTTCCCTGGTCACTACAAATGCAACTGCTATCCTGGCTACCGGCTCAAGGCCTCCCGACCGCCCATTTGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024940-Ltbp3:NM_008520:14
Average complexity
IR-S
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=95.6),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=90.9),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAACACTGGTGGCTCCTACA
R:
GGTAGCCAGGATAGCAGTTGC
Band lengths:
177-272
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: