MmuINT0093764 @ mm9
Intron Retention
Gene
ENSMUSG00000040488 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:MGI Symbol;Acc:MGI:1321395]
Coordinates
chr7:28093940-28094433:-
Coord C1 exon
chr7:28094305-28094433
Coord A exon
chr7:28094087-28094304
Coord C2 exon
chr7:28093940-28094086
Length
218 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGA
5' ss Score
5.24
3' ss Seq
TTCCTCCCATACTTTCCTAGATA
3' ss Score
8.67
Exon sequences
Seq C1 exon
ATGTGGACGAATGCCAACTCTTCCAGGACCAGGTGTGCAAGAGCGGAGTGTGTGTGAACACGGCCCCAGGCTACTCTTGCTATTGCAGCAACGGGTTCTACTATCACGCACACAGGCTGGAGTGCGTTG
Seq A exon
GTATGAGCCCCACCTTCCCCACCCCCAATTCTGGCCAGGCCAGTCCCCCCTCCAACACCCCACCCCACCCCACCCCCGCCCCAAGTAGGAATGTAGCCAACCCAGCAGGAAGTCTAGACTCTATCCATCACAATGTGAGCTGAGGAAATGTGAACCAGAGTTCATCCTGGTAACTGCCTCCCCCGCAACCCCCCGCCCTTCCTCCCATACTTTCCTAG
Seq C2 exon
ATAATGACGAATGTGCGGACGAGGAGCCTGCTTGTGAAGGTGGCCGCTGCGTCAACACGGTGGGCTCTTACCACTGTACCTGCGAGCCCCCACTGGTGCTGGACGGCTCCCGGCGACGCTGCGTCTCCAACGAGAGCCAGAGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040488-Ltbp4:NM_001113549:25
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),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=82.0)
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:
ATGTGGACGAATGCCAACTCT
R:
CCAGGCTCTGGCTCTCGTT
Band lengths:
276-494
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: