MmuINT0093772 @ mm9
Intron Retention
Gene
ENSMUSG00000040488 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:MGI Symbol;Acc:MGI:1321395]
Coordinates
chr7:28113205-28113881:-
Coord C1 exon
chr7:28113759-28113881
Coord A exon
chr7:28113370-28113758
Coord C2 exon
chr7:28113205-28113369
Length
389 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGC
5' ss Score
3.27
3' ss Seq
ATTTCCTCCCATCACCCTAGCCC
3' ss Score
8.01
Exon sequences
Seq C1 exon
ATGTGGATGAGTGCGCCACCGGTGGGCGTTGCCAACACGGGGAGTGTGCCAACACTCGTGGCGGCTACACGTGTGTATGTCCGGACGGTTTCCTCCTGGACTCTTCCCGCAGCAGCTGCATCT
Seq A exon
GTGAGCCACCAGGAAAGGGGGCGGGGCTGTGAAGCTGGTTCCTAAATTGCTCATGACCTTAGAAAACATCCCAGAATATTTCTGAATTCTTAATTCCCTTAGATACTCCAAACCCTTCTAGCCCCTCAGACTCCCAGAATCTTGAATTTCTTTAGGATCTCCAAATTCTCTCGACCTCTTGACCTCTTGACAGCGTTCAGATTCTTATACTCAGATTCTCATTTATAGCTTACTTCAAACCTTGGGGCACTCTTGGCTCTCCCCTAGATCTCTCTAGATGCCCCTCCCACTTACCCACTAAAGCCTCTCGGAGGGGCCATTCAATCACACACAGAGAGAACCACTGTACTTCCCACCACACCCTGAAGAATTTCCTCCCATCACCCTAG
Seq C2 exon
CCCAACACGTGATCTCCGAGGCAAAGGGGCCCTGCTACCGAGTGCTGCATGATGGCGGATGCTCGCTGCCCATTCTTCGAAATATCACCAAACAGATCTGCTGCTGTAGCCGTGTGGGCAAGGCGTGGGGCCGAGGCTGCCAGCTCTGTCCACCTTATGGTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040488-Ltbp4:NM_001113549:6
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=95.2)
A:
NA
C2:
PF0068312=TB=PU(86.0=66.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGTGGATGAGTGCGCCAC
R:
ATAAGGTGGACAGAGCTGGCA
Band lengths:
281-670
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: