MmuINT1029580 @ mm10
Intron Retention
Gene
ENSMUSG00000061898 | Rbak
Description
RB-associated KRAB zinc finger [Source:MGI Symbol;Acc:MGI:1927369]
Coordinates
chr5:143176036-143176591:-
Coord C1 exon
chr5:143176465-143176591
Coord A exon
chr5:143176132-143176464
Coord C2 exon
chr5:143176036-143176131
Length
333 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
TCTCCTTTTCCTGTTAACAGGGT
3' ss Score
10.39
Exon sequences
Seq C1 exon
GGCCCACTGTCATTCAAGGATGTGGCTGTGGCCTTCTCCCAGGAGGAGTGGCAGCAGCTGGACCCTGAGGAGAGGACCACATACAGGGATGTGATGCTGGAGACCTACAGCAACCTCGTCTCCGTGG
Seq A exon
GTGAGGACCACTTGCTTCCTAAACACTGTGAATTTAAAATGATTTGTCTTTGAGTTTGAAGGAACAAGTGCTGACACTTCGTCCTTTCGGGTAGATATCAGGTATCTTTACTGCTCCACTGAAAGATCCTACATCTTTCCCCCTTGTGGTACTGGAAATTGAACCCAGAGCCTCCTGCATGTGAGCGGTGTTAGCTACAGCCCAATACACAAAAGGCTCTGGTTTTACTTGGCAAACACAGGCAAAGTGTTATGTAACTTGTGGTGGAGCTCCCTATACCACAGCGGTTCTGCAGCCAGTGAGTCCAAACACTTCTCCTTTTCCTGTTAACAG
Seq C2 exon
GGTATGACGTTACCAAGCCAAACATGATTATTAAGTTGGAGCAGGGAGAAGAGCCCTGGACAGTGGAAGGTGACCGCCATGCTCAGAGGCATTTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061898:ENSMUST00000165318:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.209 A=NA C2=0.303
Domain overlap (PFAM):
C1:
PF0135222=KRAB=WD(100=95.3)
A:
NA
C2:
PF0135222=KRAB=PD(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCCACTGTCATTCAAGGAT
R:
CCAAATGCCTCTGAGCATGGC
Band lengths:
223-556
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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