MmuINT0093745 @ mm9
Intron Retention
Gene
ENSMUSG00000024940 | Ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:MGI Symbol;Acc:MGI:1101355]
Coordinates
chr19:5747413-5747856:+
Coord C1 exon
chr19:5747413-5747571
Coord A exon
chr19:5747572-5747670
Coord C2 exon
chr19:5747671-5747856
Length
99 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTCTGCATCTTGACCACAGCAG
3' ss Score
5.1
Exon sequences
Seq C1 exon
CCGACAAACCAGAGGAGAAGAGCCTGTGTTTCCGCCTTGTGAGCACCGAACACCAGTGCCAGCACCCTCTGACCACACGCCTAACCCGCCAGCTCTGCTGCTGTAGTGTGGGTAAAGCCTGGGGTGCCCGGTGCCAGCGCTGCCCGGCAGATGGTACAG
Seq A exon
GTGAGGCAGAGGCACATCGTGGATGATGTAGGGATGGGACGGCAAGCTGTGTACCCGTCCAGGAGTTCACTTGTTGTGGTGTCTGCATCTTGACCACAG
Seq C2 exon
CAGCCTTCAAGGAGATCTGCCCGGCTGGGAAAGGGTACCATATCCTCACCTCCCACCAGACGCTCACCATCCAGGGGGAAAGCGACTTCTCCCTCTTCCTGCACCCCGACGGGCCACCCAAACCCCAGCAGCTTCCTGAAAGCCCCAGCCGAGCACCACCCCTCGAGGACACAGAGGAAGAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024940-Ltbp3:NM_008520:8
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=0.619
Domain overlap (PFAM):
C1:
PF0068312=TB=PU(85.7=66.7)
A:
NA
C2:
PF0068312=TB=PD(11.9=7.9)
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:
GGAGAAGAGCCTGTGTTTCCG
R:
GGCAGATCTCCTTGAAGGCTG
Band lengths:
167-266
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: