MmuINT0093712 @ mm10
Intron Retention
Gene
ENSMUSG00000002020 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:MGI Symbol;Acc:MGI:99502]
Coordinates
chr12:84784754-84785485:-
Coord C1 exon
chr12:84785204-84785485
Coord A exon
chr12:84784904-84785203
Coord C2 exon
chr12:84784754-84784903
Length
300 bp
Sequences
Splice sites
5' ss Seq
CAGGTACGT
5' ss Score
10.65
3' ss Seq
TCTTTCTGACTCTCTATTAGAAC
3' ss Score
7.1
Exon sequences
Seq C1 exon
AGGTCTACGCTCAGCTGTGCAACGTGGCTCGGATTGAGGCAGAGCGCGGAGCAGGGATCCACTTCCGGCCAGGCTATGAGTATGGCCCTGGCCTGGACGATCTGCCTGAAAACCTCTACGGCCCAGATGGGGCTCCCTTCTATAACTACCTAGGCCCCGAGGACACTGCCCCTGAGCCTCCCTTCTCCAACCCAGCCAGCCAGCCGGGAGACAACACACCTGTCCTTGAGCCTCCTCTGCAGCCCTCTGAACTTCAGCCTCACTATCTAGCCAGCCACTCAG
Seq A exon
GTACGTGCAGCAAAACTGGAGAAGAGCCACGCCCTGCCGTCCTCTCACCCCTTCTGCCTGCCTGCCAGGGGAGGACAGGGAAGGGGAAATACACTGGGCACAGGCAGCCAAGCGTCACCCCAAACCTTAAGGAGAGTGTGACCTTTGTTGCAGTGTCGTTCTGTAGGGCTGTTGCGATCCACTGACAACCCCACCCTCGGCAGGCAACAGCGACCACCATTGTACTGGAGGGTGTAGGGTGAGAGACACGGGAACCTACGCCCTCAGACCTCAGCCTTCTTCTTTCTGACTCTCTATTAG
Seq C2 exon
AACCCCTGGCCTCCTTCGAAGGCCTTCAGGCTGAGGAATGTGGCATCCTGAATGGCTGTGAGAATGGCCGCTGCGTGCGTGTGCGGGAGGGCTACACTTGCGACTGCTTTGAGGGCTTCCAGCTGGATGCGGCCCACATGGCCTGTGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002020:ENSMUST00000002073:34
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.510 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.6=5.3)
A:
NA
C2:
PF0000822=EGF=WD(100=58.8),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCCGGCCAGGCTATGAGTAT
R:
CTGGAAGCCCTCAAAGCAGTC
Band lengths:
342-642
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Ribosome-engaged transcriptomes of neuronal types
- Neural differentiation time course
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types