MmuINT0093701 @ mm10
Intron Retention
Gene
ENSMUSG00000002020 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:MGI Symbol;Acc:MGI:99502]
Coordinates
chr12:84790995-84791722:-
Coord C1 exon
chr12:84791597-84791722
Coord A exon
chr12:84791118-84791596
Coord C2 exon
chr12:84790995-84791117
Length
479 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGA
5' ss Score
9.21
3' ss Seq
CATGGGCATCTCTATCCTAGATG
3' ss Score
7.86
Exon sequences
Seq C1 exon
ACGTGAATGAGTGTGTTGGGGAAGAGCATTGTGCTCCTCACGGCGAGTGCCTCAACAGCCTGGGCTCCTTCTTCTGCCTCTGTGCACCCGGCTTTGCTAGTGCTGAGGGGGGCACCAGATGCCAGG
Seq A exon
GTAAGAAGTCAGCGTGGTCATGTCTAAGGTCCACCAGCAGGACTGGTTTCTAGATCAGAGTACCTTCTGAACACCCTTACTGAAGTGAACAGCATACCCACAGCCCACCCGGGACTGGGGAGGACTGGGGAGATGTGAAAGATCCAGGAAGTGCTTAGAGTCAGTCAGAGGGCCCTCTGTGATGCCTGTGGCAGATGTGCATGCTCTCCAGGGTCTCAGTGTTCCCTTTCTCCTGCTGACGGAGCCCCACCCCCCACTAGAGCCCTTCCCCCAGCGTGGCCTCAGGTTCCTGGCACTGGACTGGTCCCCTTGATCCTCCTACTCTGAGCTTCTCCCTCGATCTCCTGTGGGCTCCTTGAGGTCTGAAGGAAGCAGCTTGGGGCCCTAGCAAGCTCTAAAGAGACCCGTTAGCTGCATCTGCTCACGGGCATCTCTATCCTACCGTTAGCTGCATCTGCTCATGGGCATCTCTATCCTAG
Seq C2 exon
ATGTTGATGAATGTGCAGCCACAGACCCGTGTCCGGGAGGACACTGTGTCAACACAGAGGGCTCCTTCAGCTGTCTGTGTGAGACTGGCTTCCAGCCCTCCCCAGACAGCGGAGAATGTTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000002020:ENSMUST00000002073:24
Average complexity
IR
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=95.3),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.2),PF0764510=EGF_CA=PU(0.1=0.0)
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:
ACGTGAATGAGTGTGTTGGGG
R:
AAACATTCTCCGCTGTCTGGG
Band lengths:
247-726
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