MmuINT0022835 @ mm10
Intron Retention
Gene
ENSMUSG00000027580 | Helz2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:MGI Symbol;Acc:MGI:2385169]
Coordinates
chr2:181230067-181230450:-
Coord C1 exon
chr2:181230334-181230450
Coord A exon
chr2:181230263-181230333
Coord C2 exon
chr2:181230067-181230262
Length
71 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
ACATGAGTGACCTCATATAGGTA
3' ss Score
3.27
Exon sequences
Seq C1 exon
GAGCATTACCCTTCACCACCGGATCCGCCAGGCCCCCAACCCATATGCAGCAGAGATCAGAAAATTTGATGCCCAGCTTCGGGAAGGGAAAATATTCTCAAAGGAGGATCTTAGAGT
Seq A exon
GTAAGTGGTGATCTTGGAGGTGGAGCTACCCATCAGCAAGCTCATTGGGTGACATGAGTGACCTCATATAG
Seq C2 exon
GTACAGGAGAGTCTTGGGGAAGGCACGCAAACATGAACTGGAGCGGCACTCGGTCATCCTGTGCACGTGCTCCTGTGCGGCATCAAAGAGCCTGAAAATTCTGAATGTTCGACAGATCCTTATCGACGAGGCAGGCATGGCCACTGAGCCAGAGACCCTTATCCCCTTGGTGTGCTTCTCAAAGACGGTTGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027580:ENSMUST00000121484:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.125 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130861=AAA_11=FE(15.6=100)
A:
NA
C2:
PF130861=AAA_11=FE(26.0=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:
CCCAACCCATATGCAGCAGAG
R:
CTCTTTGATGCCGCACAGGAG
Band lengths:
173-244
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