MmuINT0022840 @ mm10
Intron Retention
Gene
ENSMUSG00000027580 | Helz2
Description
helicase with zinc finger 2, transcriptional coactivator [Source:MGI Symbol;Acc:MGI:2385169]
Coordinates
chr2:181239485-181241071:-
Coord C1 exon
chr2:181239980-181241071
Coord A exon
chr2:181239669-181239979
Coord C2 exon
chr2:181239485-181239668
Length
311 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
TGACCTCTTCATCTCTCCAGGCC
3' ss Score
10.11
Exon sequences
Seq C1 exon
GGCTGACGGTTTCAGTACAGCAGCTGCCCAGAAGCCTGGCTCACAATCCTGAAGGACCTGGCCTTTGTCCGAGATGGCATCCGTGGGTTGCAGTCTGAGGTCGGCCAGCACATCCGCCACCAACGGGCCATCCTTAGCCGGACTCTGTGCTAAGGTAGACCTTTACCTGGGCTGCTCCCGCTGCACCCAGTGCCTCAATGAGAGTACCTACATTCTGCGTGAGGTAGAGCACACCTGCCCCAGGGAGATCTTGCTGGCCCGCTTCAAGCAAGCAGCAGAGAGCAAGATCTGGCGTAAGGTGGGCCGCAGGCCTAGCTTCCCAACGCCTATGCGCTATCAAGTCTGTCACTACTATAGGCCAGGGTTGGGCTGTAGGCGTCACTGGAATAGATGCACCTTTGCCCGAAGCCCTGAGGAGGCACTGGTCTGGACATTTGAGCTCAAGAACAACCTTCCCCGATTGAAACTGAAAGAGGCTGTGCAGGGCACCAGAGCCCCAGATAGGCTGCAGACCCCAGCTGACACCATCCGAGCAGAGTTTGGTGGCCACTTCCAACTACTCTGTGCCATCTGCTTCACGTGCTGTCCCCCGTGCCTCTGCCCCGTGGATCCCAGGGGCCATTGCCCTAAGCACCAAATCTGCCCCACACTTCTCATCCATGTTATAGTTGAGGGCCTAAAGCGACAATTCGTGGAGGTGCGGCCACTGCCACAAAGAAGACATCCTTTAAACTACTGCATGTATGTGGGCCGTGGGGTACCATGCCGCCATGGGGCCTCACGCTGTGAGTATGCACACAGTGCTGTGGAGATGGCTGTGTGGAAGGCTGAGCAGTTGGATGGGCTTCAGAGAGGAGATCTGCTCACATATCCTCTCTTTGGGGAAAACAAATGGAAAGCCAGCCCTAACCCTAACCCTCCTGTGACCAAACTGTACTGCCATGCCTGCCTGGTCACCTGTAATTCTCAAGAGGCATTTGAGAACCACTGCTCCTCCCTGGAGCACGCACAGATGGTGGCCTTTGACCAGGCTGTGCCCTGGAAACACCGTGCCCCACCAATGGGACTCTCCAAGTTCGATCTCTGCCCTAG
Seq A exon
GTAAGGAGAATTGTGTGGGAGCCTAGGGTGGGAGAGCCCCCACCCAACGCTAGCCCAAGGGATTGTGAGGTCCACAAGGCCTGAGACCTGCCTATCATTTGCTGTGCCCTCTGCATGTCAAGCTAGTACTGCAGTGGCCTCTGAGGGAGGTTCCTTGTGCCAGCCCTTGTCCTGGATATTCAGGGTACAGAGCAAATAAAACCCCCTACACAATCCATTCCTGCCCCCCATACAGGCCAGGGTTGGGCTGAGAGGGTTGACTCCCGAGGCTGGACATCCCTGAAGTCCTGCTGACCTCTTCATCTCTCCAG
Seq C2 exon
GCCTGATCTCTGTGAGCACGGAGAGGTCTGCATCAAGGCACACTCAAAACAGGAGTTACAGGAGTGGGTTCAGCGGGCACAAGACATGGAACTGCGAGAACAGGCCGCCTGGCAGGATGGGCTGGTACCTTACCAGGCACGACTTCTAGCGGAATACCAGCGCAGCAGCAAAGAAGTATCAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000027580:ENSMUST00000121484:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.012 A=NA C2=0.048
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TCACGCTGTGAGTATGCACAC
R:
GTGCCTTGATGCAGACCTCTC
Band lengths:
355-666
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