MmuINT0077085 @ mm9
Intron Retention
Gene
ENSMUSG00000020721 | Helz
Description
helicase with zinc finger domain [Source:MGI Symbol;Acc:MGI:1925705]
Coordinates
chr11:107523156-107525129:+
Coord C1 exon
chr11:107523156-107523346
Coord A exon
chr11:107523347-107524921
Coord C2 exon
chr11:107524922-107525129
Length
1575 bp
Sequences
Splice sites
5' ss Seq
CCTGTAAGT
5' ss Score
7.52
3' ss Seq
TTGTTTCTCCTAATAATTAGGTG
3' ss Score
6.74
Exon sequences
Seq C1 exon
TTCAGCCCAATCCTTCCGTACTTATTGGCAATCCTATTAGAGCATATACTCCTCCGCCCCCTCTTGGACCGCACCCAAACTTGGGAAAATCTCCAAGCCCCGTTCAAAGAATAGATCCTCACACTGGGACTAGTATTCTTTACGTACCTGCTGTCTATGGAGGAAATGTAGTTATGTCGGTGCCTTTACCT
Seq A exon
GTAAGTGGATGCTTCAAATACTTTCTCCTAAATCAGTAGCGGCGGTGGCAGTCCCAGTGAGGGTTTGCCATCCTTTGCTTTTCCGTGCTGGGCACTGAACCAAGGGTCTCATGTATGCAGCAGTCACTGCTGAGCCACACCCACGTGCTTTTATTTTATTTTTGCCTCTCTAGCATCCATAAAGTGACTCATGTTTAATTTTTAAGTTTTGAAATGGCCAGAGATGTGAATGACTAAATGTCACTGGTTGGTTTGCCAGAGACTATGAAGAAGTCTGGGGGTCTCCTGTTTTGATTCAGAAGCCTTTGAAATCTTGTAAACTGTTTTCCTCTGAGGAGAGCAGTATAATTGATGTTTCTGTTTCGTCTTCTGCATTTTATTCTCAGTCACGAACTGTTGCCAAGCAGCAGGGTTATTGGGGAGCCAGAGACCTTCAGTTCTCTTAGAGACCTTCAGTTCTCTTGGGTCTCAGTTGGTCTGGGGAATCCCACGCTGTATGACATATTAGAGCTACACTACGGAATTCTGAGGTTTTTAGAGGGCTTCCATCTGATTCATAAATTCACTTTTATTTCCTTTTTGAAATGTTTGGTGATTTTTTTTTAACTTGTAGAGACATGAATATCTCTAAATTTAGAAGTTTTAGCCTAAGAAACAATTTATTTGATTGAAGTGAGTTAATTTCAGTGAGAGGTGATCTTGTCAGAGTGCTTTGACACTCCTGCCTGTGCCCACAAAGAGAACCGCTGAACTGCAAGCATTCTCAGCCTGTGGTAGGTCACAGCCTGGCAGCCAAGCAGAGTATGGTCGGAGGCAAGGGTTTCTTGCCTGTGCCTCAGCGGCTTCTGATTGTAGCTATTTCTTTCTGGACAGCCTGGCAACATGATACATGGTCTGCTTTAAATAGTCTGTCTGTTAGGATTTCTGTTTCATTTTACTAGGTCACAGAGCTTTTAGGATATAAGATCTCTGAGAGTCTGTGTCCGCCAGTTAAAACAGTGACAACGGCAGATATCATTTTCATCCCTGTAATGATCATGCATATCTAGGCAAGCTCTTCTGTCTCTGTGACTTAAGGTAGAGTTGAGTCCATCAGAAGCATTCATTAAAATAATGATCTGTGTGAGTTTTGCCTGCCATGAGCCCTGAATGATTGTTACTCACGTAAGGTTAGAGTTGGGACTCCTTAGTTTTCTCCTCCAACCTTAGACCCAGTCTGTTAAGCTATGGAACTGTGAAGTTTGACTTGAGAAGATCATTTTCATGATGCTCTGTGACGTGTACCTCCATGTGGAGGGGGAATGATTCAGGAGTATAAACTGCGTTGATGTCTTGGGGAATAAGTACTAGTTTCAAGTCCTCATTTTCCCTAACCTGCTAAGGATTTTGAGAGCCAGGTTTTGGCTGGTAAGGGCATAATCGCAGTCCTGCCCATTGCTACTGTAGAGTGATGACCATGGTAGTGGGGTAAAAGTGTCAGCTCTGTGTAGCTGCTTTTGCTTATCTGCAGCAATGTATCCGTTTGTGTTCAGAAACTTTACTCAGTTCAATTACTTTGTTTCTCCTAATAATTAG
Seq C2 exon
GTGCCATGGACAGGGTACCAGGGTAGGTTTGCAGTTGACCCTCGGATTATCACACACCAGGCAGCAATGGCCTACAATATGAACCTATTACACACACACGGACGTGGGTCACCGATCCCTTATGGTCTTGGCCATCACCCACCTGTCAGCCTAGGCCAGCCACAGAGTCAGCACGCAGAGAAGGATCAGCAGGAGCAAAACCGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020721-Helz:NM_198298:25
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.786
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGCATATACTCCTCCGCCC
R:
TCGGTTTTGCTCCTGCTGATC
Band lengths:
357-1932
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: