MmuINT0022831 @ mm10
Intron Retention
Gene
ENSMUSG00000027580 | Helz2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:MGI Symbol;Acc:MGI:2385169]
Coordinates
chr2:181230759-181231502:-
Coord C1 exon
chr2:181231231-181231502
Coord A exon
chr2:181230921-181231230
Coord C2 exon
chr2:181230759-181230920
Length
310 bp
Sequences
Splice sites
5' ss Seq
AGGGTAGGT
5' ss Score
8.1
3' ss Seq
ACAGCGTCCTCTCTCCACAGGCA
3' ss Score
11.94
Exon sequences
Seq C1 exon
CCGCAAGGAAGAAGCAGTGCGTCAACTGAAAACAGCATCCCCATTGGTCATTAGCATCGCCTTGGGCCTGCCTATCCCTGAGATCCGCTGGCCAATATCTGGGCCCCGTCGCTTAGTATCTGAGCTCCGTTGGCCAATACCCGGGCCCCGTCGCCCAGTATCTGAGCCCCATCGCCCAATGTCCGGGCCCTGTGGCCCAATATCTGAACCGTGTCGCTCAATCCCCGAGCCCTGCCGCGGCAACTGGCCTCGCCAGCATTCTTTTCACAAGG
Seq A exon
GTAGGTCTGCCCCTCAGCTTTTCCACCTCTCCCCAGCACCACGGTGCTCAGATGATCCTTGGCTTCTGCTACACTCACACTCCTACCCCAGCATCTACCAGCAGGTTCTTGGAGCGGCAGAACTACAACATCCCTGCTGGACATCATAAGCTGAACCAGAGCCAGGACAGGGCTGTCAGGAGCGCTCTGCAGAAACAGTTCACAGTCATCCAGGGCCCACCAGGTGGGGCCCATTTGCAGGAGCCAGGACGGGCTGCCCTGTGTAGACAGATGTGGCCATAGGAACTTACACAGCGTCCTCTCTCCACAG
Seq C2 exon
GCACTGGGAAGACCGTTGTGGGCTTCCACATTGTGTACTGGTTCCACAGGTCAAACCAGGAGCAGATGCCAACTGACAGCAGCCCGAGTGGAGAGGAGCAGCTGGGGGGCCCATGTGTCTTATACTGTGGACCCTCCAACAAGTCTGTGGATGTCCTGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027580:ENSMUST00000121484:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.446 A=NA C2=0.230
Domain overlap (PFAM):
C1:
PF130861=AAA_11=PU(11.4=31.5)
A:
NA
C2:
PF130861=AAA_11=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGGAAGAAGCAGTGCGTCA
R:
GTTGGCATCTGCTCCTGGTTT
Band lengths:
342-652
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