MmuINT0093732 @ mm9
Intron Retention
Gene
ENSMUSG00000024940 | Ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:MGI Symbol;Acc:MGI:1101355]
Coordinates
chr19:5755546-5756099:+
Coord C1 exon
chr19:5755546-5755674
Coord A exon
chr19:5755675-5755931
Coord C2 exon
chr19:5755932-5756099
Length
257 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
TGAACTGTCCCCTTCTCCAGAGG
3' ss Score
8.86
Exon sequences
Seq C1 exon
ATATAGATGAGTGCAGCCAGGACCCAGGCCTGTGCCTGCCCCACGGGGCCTGCGAGAACCTCCAGGGCTCCTATGTCTGTGTCTGTGATGAGGGTTTCACACTCACCCAGGACCAGCATGGGTGTGAGG
Seq A exon
GTGAGTACCCTCTCTTCTCTCAGACTGGTAACCCTTGGAGCTACAGCTGGCTGGGACATGTGTCCCAATTCCACCTTTTGGAATTTCTGGAACAGGAAGAAATCCTCTTTGCCTGGGAGGAGTGGGTGGAGTTAGACCTCTCCCCAGGTGACAAGGAGGGCTAGGGCAGGTGAAGGCCAGAGTGGGTGCAGTTTTGGGGTACAGCAGACAGGGCCAAAGCTACTATCTCCATGAACTTGAACTGTCCCCTTCTCCAG
Seq C2 exon
AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTTAACTTCGATGACACAGTGTTCTGTGACAGCGTATTGGCTACCAATGTCACTCAGCAGGAATGCTGTTGCTCTCTGGGAGCTGGTTGGGGAGACCACTGCGAAATCTATCCCTGTCCAGTCTACAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024940-Ltbp3:NM_008520:20
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=95.5)
A:
NA
C2:
PF0068312=TB=PU(86.0=64.9)
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:
TAGATGAGTGCAGCCAGGACC
R:
TGAGCTGTAGACTGGACAGGG
Band lengths:
293-550
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: