MmuINT0093740 @ mm9
Intron Retention
Gene
ENSMUSG00000024940 | Ltbp3
Description
latent transforming growth factor beta binding protein 3 [Source:MGI Symbol;Acc:MGI:1101355]
Coordinates
chr19:5745440-5746120:+
Coord C1 exon
chr19:5745440-5745769
Coord A exon
chr19:5745770-5745917
Coord C2 exon
chr19:5745918-5746120
Length
148 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTA
5' ss Score
7.52
3' ss Seq
CACCGCGCCCCGCCCCCCAGTGC
3' ss Score
7.08
Exon sequences
Seq C1 exon
TGGTGTGCCCTCTACCCTGCATGAACGGTGGCCAGTGCTCTTCCCGAAACCAGTGCCTGTGTCCCCCGGATTTCACGGGGCGCTTCTGCCAGGTGCCTGCTGCAGGAACCGGAGCTGGCACCGGGAGTTCAGGCCCCGGCCTGGCCCGGACCGGGGCCATGTCCACAGGCCCGCTGCCGCCCCTTGCCCCAGAAGGAGAGTCTGTGGCTAGCAAACACGCCATTTACGCGGTGCAGGTGATCGCAGATCCTCCCGGGCCGGGGGAGGGTCCTCCTGCACAACATGCAGCCTTCTTGGTGCCCCTGGGGCCAGGACAAATCTCGGCAGAAG
Seq A exon
GTACTAGGAGACGGGCAACCCGGGGGTGCTTAAACGGGCGGGCAATAAGGGTGGTCGGATTAAGGCGCGGGCCAGGCCCCGGAGGAGCTCAGCGCCGCGACCCTCCAGGAGCGGGACAGCCCTGAGGCCACCGCGCCCCGCCCCCCAG
Seq C2 exon
TGCAGGCTCCGCCCCCCGTGGTGAACGTGCGTGTCCATCACCCTCCTGAAGCTTCCGTTCAGGTGCACCGCATCGAGGGGCCGAACGCTGAAGGCCCAGCCTCTTCCCAGCACTTGCTGCCGCATCCCAAGCCCCAGCACCCGAGGCCACCCACCCAAAAGCCACTGGGCCGCTGCTTCCAGGACACATTGCCCAAGCAGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000024940-Ltbp3:NM_008520:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.631 A=NA C2=0.882
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=24.3)
A:
NA
C2:
PF0068312=TB=PU(2.3=1.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAACATGCAGCCTTCTTGGT
R:
TTGGGCAATGTGTCCTGGAAG
Band lengths:
249-397
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: