MmuINT0157257 @ mm10
Intron Retention
Gene
ENSMUSG00000039678 | Tbc1d13
Description
TBC1 domain family, member 13 [Source:MGI Symbol;Acc:MGI:2385326]
Coordinates
chr2:30148623-30148988:+
Coord C1 exon
chr2:30148623-30148783
Coord A exon
chr2:30148784-30148930
Coord C2 exon
chr2:30148931-30148988
Length
147 bp
Sequences
Splice sites
5' ss Seq
CATGTGAGT
5' ss Score
7.83
3' ss Seq
GGCTCCTTGTTTCCCTGCAGACT
3' ss Score
10.45
Exon sequences
Seq C1 exon
CAAGAGCAGAGTATCAAGCCTCAGTTCTTTGCCTTCCGATGGCTGACATTGCTGCTGTCCCAGGAGTTCTTGCTGCCTGATGTCATCCGTATCTGGGACTCCCTCTTTGCTGATGGCAACCGATTCGATTTCCTCCTCCTGGTCTGCTGTGCTATGCTCAT
Seq A exon
GTGAGTGGGGCCATCCTTAAGAGAAGCTGGGGGGTGGAGGTGGGGGAGTACCCAGACCTGAGTGGTGAGCAGGGGCCACCCTCCACAGCTAGAGTACACCCGGGGCGCACCCAGGGTCCAGCACTGTGGCTCCTTGTTTCCCTGCAG
Seq C2 exon
ACTGATCCGGGAGCAGTTACTGGAGGGGGACTTCACTGTCAACATGCGGCTTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000039678:ENSMUST00000044556:10
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:
PF0056613=RabGAP-TBC=FE(32.3=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=PD(4.3=35.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGAGCAGAGTATCAAGCCTCA
R:
CTGCAGAAGCCGCATGTTGA
Band lengths:
219-366
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