MmuINT0177733 @ mm10
Intron Retention
Gene
ENSMUSG00000028952 | Zbtb48
Description
zinc finger and BTB domain containing 48 [Source:MGI Symbol;Acc:MGI:2140248]
Coordinates
chr4:152025778-152027059:-
Coord C1 exon
chr4:152026388-152027059
Coord A exon
chr4:152026020-152026387
Coord C2 exon
chr4:152025778-152026019
Length
368 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTG
5' ss Score
7.67
3' ss Seq
TGCTGCCTCCTCTGCTCTAGTGG
3' ss Score
7.21
Exon sequences
Seq C1 exon
ATTATGGACGGTTCCTTCGTGCAGCACAGCGTGAGGGTTCTGCAGGAACTCAACAAGCAGCGCGAGAAGGGCCAGTATTGCGACGCCACACTGGACGTGGGGGGCCTGGTGTTCAAGGCGCACTGGAGTGTCCTGGCGTGTTGCAGCCATTTCTTCCAGAGAATCTACGGGGATGGCACAGGGGGCAGCGTTGTCCTCCCAGCGGGCTTTGCTGAGATTTTTGGCCTCCTGCTGGACTTTTTCTACACTGGCCACCTCGCCCTCACCTCAGGGAACAGGGATCAGGTACTCTTGGCAGCCAAAGAGTTGAGGGTGCCTGAGGCTGTGGAGCTATGTCAGAGCTTCCAGCCCCAAACCTCAGTGGGACAGGCACAGAGTGGACTGGGTCAACCTGCCTCCCAGGACGTGAAAAGCCACCTGAAGGAGCCGACAGACTTGGATGAGGAGGAAGTTTTCAGGACTCTGAGCCTGGCCTCCGTGGATCAGGAGCCCAGAGACACTGAGCAGCCCCAGCTGGGTACACCTGCTCAGAGCACCACGGCCTTCCTCTGTGGGAAACTCACGCAGGCTTTGAAGCCTTCTCCCTCAGAGGACAAAGAGTCTGAGGACTGCAAAGAGCCCCCAAGGCCCTTCGAGGCTGGAGGTGCCCCGCTGCAGGGCGAGAGCAATGAG
Seq A exon
GTACTGTTTTCAGGGAACTGGGGAGGCAAGCATAAGGGTAAAGACCGACACTTCGGGAGCAAACATGGGAAGCCAGTGGTCTCAGCTGACCTTCTGCGAGCTACACTTGTCCATGGTTGCCAGCTTCCTTGGGGTGGAGTGAGCGTCAGGGTTACAGGTATTTCCTTAGGTTAGTGATCCTGGCCAGCTCCCTGCTAACATAGCCACTATGCTCCAAGTCCAAGATTGCAGTCTCCTCTGGGCCCTGCAGGGAACTGTTGTCTCTGGTGAACGGACCATCTGGGGGTGGGGCTTATGTTGGAACTGAAGGCTGGGTCCTGCTGATACCTGGGTGACCCTACCCCCTCCTGCTGCCTCCTCTGCTCTAG
Seq C2 exon
TGGGAAGTGGTGGTCCAAGTGGAGGACGACAGGGACGGTGATTACGTATCTGAGCCTGAGACTGTGCTAACCAGAAGGAAGTCAAAAGTGATTAGAAAACCCTGTGCAGCCGAGCCAGCCCTGGGTGCGGGTTCTCTCACAGCCGAGCCCACTGACAGCAGAAAAGGTGCAGCCGTTCCGGTCGAATGTCCCACATGTCACAAAAAGTTCCTCAGCAAATATTACCTGAAAGTCCACAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000028952:ENSMUST00000155389:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.447 A=NA C2=0.497
Domain overlap (PFAM):
C1:
PF0065126=BTB=WD(100=46.6)
A:
NA
C2:
PF100834=DUF2321=PU(41.1=45.7),PF134651=zf-H2C2_2=PU(24.0=7.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACGTGAAAAGCCACCTGAA
R:
TGGTTAGCACAGTCTCAGGCT
Band lengths:
344-712
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