MmuINT1029579 @ mm10
Intron Retention
Gene
ENSMUSG00000061898 | Rbak
Description
RB-associated KRAB zinc finger [Source:MGI Symbol;Acc:MGI:1927369]
Coordinates
chr5:143179486-143180775:-
Coord C1 exon
chr5:143180549-143180775
Coord A exon
chr5:143179643-143180548
Coord C2 exon
chr5:143179486-143179642
Length
906 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGG
5' ss Score
8.99
3' ss Seq
CCTTCCTATCACCTCTGCAGTGT
3' ss Score
8.15
Exon sequences
Seq C1 exon
CGCGCTTGCGCTGGGCCACTGCGCCGTGGTGACTTCCTGCAGGTCTGGTGTGTCGAGGCTACCTTCCCTCCCGCAGCCTTTGCGTTCGCTAAGCTGGAGTTGCCGAGCCTGCAGGGCCGAGGCCGGAGCTTCCGGGGCGGCAGCGAACAGACTCGGCTGTGCGGGCTAGGGAGGCCTAGCGAGAGCTCGGCGCGGAGGCTGACAGGGGCAGCGGAGACGCCTGCTCG
Seq A exon
GTGAGGCCCGAGGGCGCAGAGCGATCGGGGCTGCGGGAGGGATGCTGGGCACAGATGGTGCCCAGTCAGTTCACCCGGGCACCCCGCTGTCCCCAGCTTGCGGCGCCTGGGAGGGTCGAGGTGGTCGGGCTGACAGCGGGACAGCTGCATCGCTTTGGGCTGCACGGTCAGTCCCGAGGACAGAGTGCAGGCACTGAAGAACTCAAGGGCTCCAGATTCCCACGGTGTCACTCAGCGTCCATCAGCTCTCTTGCTCTGTCTGTGGTCCCCCCCCCCCCCGAGTCTGCCCTTGAGGCATCGTAATGGTCTAGTGCTCAAAATCTGCTTTTACTTCTTTCTGCTCGTGAAGGAAGACTGAGTCTGCGACAGGTGTGAGACTTAATCAAGGTTGTGTTGAAATGAGTGCCATTGTTTTCTAGTTTCTTCCCTTAGTCCCTTTTTAAGATATGCAGCAGTAACCAAGTTTAGTTGGATAGTTTGAAAACAAACCACGCTTTATCCCTGTTTGTCGGACGTCTATCCATCTGGACCATTTTTCCTTTTTGTGTTTTAGTTTTTTTGAGGCGTGGATTCCTTGTGGCACATATTGTTCTGGTAGTGGGTGATCCTCCCGTCTCCGCCTCCAGAGAGTTGGGATTGCATGTATGTCACCTCATGGAACATGGATCCCAGATATATATATATATAGTGCCCAGAATCCTCATTCACTGTGACATATTTTGCAACAGTTTGAATAGGAAATAAAATAAGTACCCTTGTTTCCCCCACCTTTACACCAAATGCCCGTGGATAAAAAGAAGGCAGCGTAGTGTTCATCATAGAACTGTACCCGCCCCCCCTCGCCTCCCACCCCCCATTCCACCTGTTGGAGTTAGGTTTGTGATTTCCTTCCTATCACCTCTGCAG
Seq C2 exon
TGTGTATAAGCTGCGATTTCACTTGGTGGTTCCCAGGCGAGAGACATGTCCCTGTGTAGACCAGTTAATCTCCGATTTCAGCGAGCTTTTCCTCCAGCAGGTCAGTCAGCAGTGTCTACAGTTCCCCCAAGAGGAGCAGAACATGAGCAGATCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000061898:ENSMUST00000165318:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=0.429
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGACTTCCTGCAGGTCTGGTG
R:
CATGTTCTGCTCCTCTTGGGG
Band lengths:
343-1249
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