MmuINT0132393 @ mm9
Intron Retention
Gene
ENSMUSG00000061898 | Rbak
Description
RB-associated KRAB repressor [Source:MGI Symbol;Acc:MGI:1927369]
Coordinates
chr5:143937715-143938270:-
Coord C1 exon
chr5:143938144-143938270
Coord A exon
chr5:143937811-143938143
Coord C2 exon
chr5:143937715-143937810
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-Rbak:NM_001045482:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.178 A=NA C2=0.265
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
Rat
(rn6)
No conservation detected
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]
Other AS DBs: