MmuINT0022834 @ mm10
Intron Retention
Gene
ENSMUSG00000027580 | Helz2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:MGI Symbol;Acc:MGI:2385169]
Coordinates
chr2:181230334-181230680:-
Coord C1 exon
chr2:181230533-181230680
Coord A exon
chr2:181230451-181230532
Coord C2 exon
chr2:181230334-181230450
Length
82 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
ACCAAGGTCTTGCCTTCCAGGAG
3' ss Score
7.19
Exon sequences
Seq C1 exon
GACTGCTCCTGAGGAGGAAGACAGAGATGAAGCCCCTGCGTGTATATGGGGAGCAGGCAGAGGCCACTGAATTCCCGCTGCCAGGAGTGAGCAACAGGAGTCTGTTTGGCAAGACCTCTCAGGAAGGAAGACCAAATCAGAGCCTCAG
Seq A exon
GTATGGCCCCTTCTGTCTGTGCTGGGATTGAGGCCAAGGGGACCTCCACTGGCCAGGGTTTCACCAAGGTCTTGCCTTCCAG
Seq C2 exon
GAGCATTACCCTTCACCACCGGATCCGCCAGGCCCCCAACCCATATGCAGCAGAGATCAGAAAATTTGATGCCCAGCTTCGGGAAGGGAAAATATTCTCAAAGGAGGATCTTAGAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027580:ENSMUST00000121484:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.300 A=NA C2=0.125
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(19.6=100)
A:
NA
C2:
PF130861=AAA_11=FE(15.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGCCCCTGCGTGTATATGG
R:
CTCTGCTGCATATGGGTTGGG
Band lengths:
175-257
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