MmuINT0093774 @ mm10
Intron Retention
Gene
ENSMUSG00000040488 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:MGI Symbol;Acc:MGI:1321395]
Coordinates
chr7:27327261-27327787:-
Coord C1 exon
chr7:27327638-27327787
Coord A exon
chr7:27327513-27327637
Coord C2 exon
chr7:27327261-27327512
Length
125 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGATGCTCTTTCTTTACCAGGCT
3' ss Score
7.92
Exon sequences
Seq C1 exon
AGGGTTTTCGGGAGATCTGTCCAGCTGGCCCTGGCTACCACTATTCAGCTTCTGACCTCCGATACAACACCAGACCCCTAAACCAGGATCCACCTCGAGTGACCTTCAATCAGCCACGTGTTCCACCAGCCACCCCTCGGCCACCTACAG
Seq A exon
GTGAGCTGGAACCTGGATGGAGGGCGTGCCATCTCCCAGGTGCTGTTGGGAGCAGATAGAAAACCATGGCGAGGAGCAAGCATACCCAAATTTAGAACCCTGGACAGATGCTCTTTCTTTACCAG
Seq C2 exon
GCTTTCTGCCTACTCGTCGACCTGAGCCCCGCCCTGACCCTGGGCCACAGCCTGAACCCCGGCCTCGGCCTGAACCCCGGCCTCGGCCTGAATCCCGACCTCGGCCTGAACCCCGGCCTCGGCCTGAACCCCGGCCTCAGCCTGAATCCCAGCCTAGGCCTGAATCCCGGCCTCGGCCTGAATCCCAGCCTTGGCCTGAATTTCCCCTGCCCAGCATCCCTGCTTGGACCGGTCCAGAGATTCCTGAATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000040488:ENSMUST00000038618:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.667 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0068312=TB=PD(11.6=9.8),PF058876=Trypan_PARP=PU(21.2=41.2)
A:
NA
C2:
PF058876=Trypan_PARP=PD(77.8=90.6)
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:
TCAATCAGCCACGTGTTCCAC
R:
CAGGGGAAATTCAGGCCAAGG
Band lengths:
254-379
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