MmuINT0093773 @ mm9
Intron Retention
Gene
ENSMUSG00000040488 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:MGI Symbol;Acc:MGI:1321395]
Coordinates
chr7:28112657-28113369:-
Coord C1 exon
chr7:28113205-28113369
Coord A exon
chr7:28112807-28113204
Coord C2 exon
chr7:28112657-28112806
Length
398 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TCTCCTTGCCTTGTTCCCAGAGG
3' ss Score
8.61
Exon sequences
Seq C1 exon
CCCAACACGTGATCTCCGAGGCAAAGGGGCCCTGCTACCGAGTGCTGCATGATGGCGGATGCTCGCTGCCCATTCTTCGAAATATCACCAAACAGATCTGCTGCTGTAGCCGTGTGGGCAAGGCGTGGGGCCGAGGCTGCCAGCTCTGTCCACCTTATGGTTCAG
Seq A exon
GTGAGCAAGTCCTTCCAACTCATCCCTTCCTAACAGACCGGAGTCATAGGCCCTGCCTTCAGTCTCCAACGTTGTCAGTACCTTGGCCACACTCCCAAGGCTTCATCAGTTCTGGGCTTCTCCTCTATCCTTAGCCACGCCCATCCCTGAAACTTACAACCTTTAAGTTAGCCTGACCAGAGCACTCCGCCATCATCCCCTAAAGAGGAAAACTCTCACGGCTCCACCATTGGCTTCTGAAACATCTAATTCTTTGGTCGGTACACTACTCCATCCAGCATATAAGCCAGACTCCCGACACTATCTCACACCAAGCTTTGTTCCCAGCCAAGGCCTACTTACCACTCACAAGACTTCACTTGGTCTCCTCTCCTGCCTTCTCCTTGCCTTGTTCCCAG
Seq C2 exon
AGGGTTTTCGGGAGATCTGTCCAGCTGGCCCTGGCTACCACTATTCAGCTTCTGACCTCCGATACAACACCAGACCCCTAAACCAGGATCCACCTCGAGTGACCTTCAATCAGCCACGTGTTCCACCAGCCACCCCTCGGCCACCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040488-Ltbp4:NM_001113549:7
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=0.667
Domain overlap (PFAM):
C1:
PF0068312=TB=PU(86.0=66.1)
A:
NA
C2:
PF0068312=TB=PD(11.6=9.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGTGATCTCCGAGGCAAAG
R:
CTGTAGGTGGCCGAGGGG
Band lengths:
310-708
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: