MmuINT0177739 @ mm10
Intron Retention
Gene
ENSMUSG00000028952 | Zbtb48
Description
zinc finger and BTB domain containing 48 [Source:MGI Symbol;Acc:MGI:2140248]
Coordinates
chr4:152020544-152020915:-
Coord C1 exon
chr4:152020779-152020915
Coord A exon
chr4:152020705-152020778
Coord C2 exon
chr4:152020544-152020704
Length
74 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACCTTGTCCCCCATAGCCAGTTT
3' ss Score
1.47
Exon sequences
Seq C1 exon
GAATGAAAGGCCTTATGTCTGTGAGTTCTGCAGCCATGCCTTCACCCAGAAGGCCAACCTCAACATGCACCTGCGCACACACACCGGCGAGAAGCCTTTCCAGTGCCACCTCTGTGGGAAGACCTTCCGCACCCAAG
Seq A exon
GTGAGGCAGGCCCAGCCCCTCCTTGCCCCAGGGCTGAGACAGCCACTGAGTTCCACCTTGTCCCCCATAGCCAG
Seq C2 exon
TTTGGACAAGCACAACCGCACCCACACGGGCGAGAGGCCTTTCAGCTGTGAATTCTGTGAGCAGCGCTTCACTGAGAAGGGCCCCCTTCTGAGGCATGTGGCCAGCCGCCATCAAGAGGGCAGGCCCCACTTCTGCCAGATCTGTGGCAAGACCTTCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028952:ENSMUST00000155389:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.355 A=NA C2=0.567
Domain overlap (PFAM):
C1:
PF134651=zf-H2C2_2=PD(59.3=34.0),PF134651=zf-H2C2_2=WD(100=55.3)
A:
NA
C2:
PF134651=zf-H2C2_2=WD(100=46.4),PF134651=zf-H2C2_2=WD(100=46.4)
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:
GTCTGTGAGTTCTGCAGCCAT
R:
TTCACAGCTGAAAGGCCTCTC
Band lengths:
173-247
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