MmuINT0022838 @ mm10
Intron Retention
Gene
ENSMUSG00000027580 | Helz2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:MGI Symbol;Acc:MGI:2385169]
Coordinates
chr2:181228955-181229380:-
Coord C1 exon
chr2:181229224-181229380
Coord A exon
chr2:181229123-181229223
Coord C2 exon
chr2:181228955-181229122
Length
101 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAGG
5' ss Score
9.16
3' ss Seq
ATCTCCTCTCTGCCTCCCAGGGA
3' ss Score
9.39
Exon sequences
Seq C1 exon
GTCCGCATCATAAAGCAGTTGACCCTGGATCGGACGGTGGATCCCAAAGATATTGCTGTCCTTACACCCTACAATGCACAGGCTGCTGCAATCAGTAGGGGCCTCATGCAAAGAGGAGTCACCGGAGTGACTGTGACCTCTATTACCAAGAGCCAGG
Seq A exon
GTAAGGTTGGCTCTATGGGGCCATTTTTATGTGTGGGGTCAGCAGGAGGGGTCAGTGGGCAGAGCTGTGAATTCATCTATTATCTCCTCTCTGCCTCCCAG
Seq C2 exon
GGAGTGAGTGGCGCTATGTGATAGTGAGTACCGTCCGAACATGCCCCAGGAGTGATGTGGACCAGCGGCCAACAAAGAGCTGGCTCAAGAAGTTTCTGGGCTTTGTTGTGGACCCCCACCAAGTAAACGTGGCCATCACCCGGGCCCAGGAGGCGTTGTGCATCATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027580:ENSMUST00000121484:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(25.1=100)
A:
NA
C2:
PF130871=AAA_12=FE(27.1=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:
AAAGCAGTTGACCCTGGATCG
R:
GCCCAGAAACTTCTTGAGCCA
Band lengths:
247-348
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