MmuINT0093775 @ mm9
Intron Retention
Gene
ENSMUSG00000040488 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:MGI Symbol;Acc:MGI:1321395]
Coordinates
chr7:28111711-28112531:-
Coord C1 exon
chr7:28112280-28112531
Coord A exon
chr7:28111843-28112279
Coord C2 exon
chr7:28111711-28111842
Length
437 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
TGGCTGACTGGCTCCTCTAGGTC
3' ss Score
8.24
Exon sequences
Seq C1 exon
GCTTTCTGCCTACTCGTCGACCTGAGCCCCGCCCTGACCCTGGGCCACAGCCTGAACCCCGGCCTCGGCCTGAACCCCGGCCTCGGCCTGAATCCCGACCTCGGCCTGAACCCCGGCCTCGGCCTGAACCCCGGCCTCAGCCTGAATCCCAGCCTAGGCCTGAATCCCGGCCTCGGCCTGAATCCCAGCCTTGGCCTGAATTTCCCCTGCCCAGCATCCCTGCTTGGACCGGTCCAGAGATTCCTGAATCAG
Seq A exon
GTACCATAGGAATCAGAGGTTGGTTGCGGGAATACTGTGAATTTCTGTGGGGAAAGGCTTCAAAGGGATTGTGAAAGATAAAAGAGATAAGGAAGGATGGGAAGAGGTAAGAATTTGAAGGTTTGGGTAGCGGTTCCCTTAGTTACTAGAGTCATGCGCTGCTAAAGAAGCAAACAGTTACACCAGTTCTAAAATGGGCATACTAGGAGGTCTCAAGAAAACACTTCTGAAGTATGGGGTATGTGAGTGTCTTTGAGGGTGGATTCAGGATTCAGGCAGAGTTGATGAGGCTCTCTCAGAGTAAACACGATCTCCAAGATTAGACTTGGTGAGGGGACACTCGCGAAGGTATCTTAGAGGGATGTTCTACAGTGTTCTGGGTGTAGAAGAGACCAAAAGTTCAGTCTTGTGGGAACGTGGCTGACTGGCTCCTCTAG
Seq C2 exon
GTCCCTCTTCCAGCATGTGTCAGCGAAATCCCCAGGTTTGTGGTCCTGGACGCTGCGTTCCTAGGCCAAGCGGCTACACTTGTGCGTGCGACCCAGGTTTCCGGCTCGGCCCCCAGGGCACTCGCTGCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040488-Ltbp4:NM_001113549:9
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.178
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=82.2),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTTCTGCCTACTCGTCGAC
R:
GGTCGCACGCACAAGTGTAG
Band lengths:
345-782
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: