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EZ-editor™ Gene Knockout Cell Line Strategy

HNRNPR Gene Knockout Strategy

EZ-editor™ technology (CRISPR based), developed by Ubigene, is more efficient than general CRISPR/Cas9 technology in double-strand breaking and homologous recombination. With EZ-editor™, Ubigene has successfully edited over 10000 genes on more than 500 types of cell lines.
Objective
To create a Human HNRNPR Knockout model in cell line by EZ-editor™-mediated genome engineering.
Target gene info
Official symbol
HNRNPR
Gene id
10236
Organism
Homo sapiens
Gene type
protein-coding
Official full symbol
heterogeneous nuclear ribonucleoprotein R
Also known as
HNRPR, hnRNP-R
Genomic regions
Chromosome 1
Summary
This gene encodes an RNA-binding protein that is a member of the spliceosome C complex, which functions in pre-mRNA processing and transport. The encoded protein also promotes transcription at the c-fos gene. Alternative splicing results in multiple transcript variants. There are pseudogenes for this gene on chromosomes 4, 11, and 10.
Strategy Summary
This gene has 23 protein coding transcripts：
Transcript Length(nt) Protein Length(aa) Protein name Transcript type Transcript name ccds
NM_001297622 7471 NP_001284551 494 heterogeneous nuclear ribonucleoprotein R 3 transcript variant 6 CCDS72726.1
XM_011540476 7480 XP_011538778 497 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X15
NM_001297621 7408 NP_001284550 473 heterogeneous nuclear ribonucleoprotein R 3 transcript variant 7
XM_011540477 7417 XP_011538779 476 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X16
NM_001102397 7585 NP_001095867 532 heterogeneous nuclear ribonucleoprotein R 3 transcript variant 4
NM_001102399 7594 NP_001095869 535 heterogeneous nuclear ribonucleoprotein R 3 transcript variant 3 CCDS60020.1
NM_001297620 7637 NP_001284549 595 heterogeneous nuclear ribonucleoprotein R 3 transcript variant 5 CCDS72727.1
NM_001437727 7574 NP_001424656 574 heterogeneous nuclear ribonucleoprotein R 3 transcript variant 8
NM_005826 7751 NP_005817 633 heterogeneous nuclear ribonucleoprotein R 3 transcript variant 2 CCDS232.1
NM_001102398 7760 NP_001095868 636 heterogeneous nuclear ribonucleoprotein R 3 transcript variant 1 CCDS44085.1
XM_011540474 7649 XP_011538776 598 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X12
XM_017000009 7577 XP_016855498 574 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X13
NM_001438564 7754 NP_001425493 633 heterogeneous nuclear ribonucleoprotein R 3 transcript variant 9
XM_011540471 7763 XP_011538773 636 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X5
XM_047424931 8337 XP_047280887 619 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X9
XM_047424758 8451 XP_047280714 657 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X4
XM_047424712 8460 XP_047280668 660 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X2
XM_047424890 8340 XP_047280846 620 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X8
XM_047424843 8349 XP_047280799 623 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X7
XM_047424994 8277 XP_047280950 599 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X11
XM_011540472 8286 XP_011538774 602 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X10
XM_047424719 8454 XP_047280675 658 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X3
XM_047424699 8463 XP_047280655 661 heterogeneous nuclear ribonucleoprotein R 3 transcript variant X1
Frame-shift
Fragment A
Fragment B
Strategy

Project Comprehensive Difficulty Assessment

According to the Red Cotton database: the CRISPR gene-editing strategy design is Unknown.
Knockout project comprehensive difficulty is thus assessed as Unknown.
Red Cotton™ Notes Gene HNRNPR had been KO in hek293t cell line.
EZ-editor™ Gene Dependency
EZ-editor™ Gene Expression Level
EZ-editor™ Gene Copy Number

EZ-editor™ Gene Dependency

Result

The HNRNPR gene you inquire is evaluated as high risk in 37% cell line. Cell line is not selected, unable to assess the accurate risk level, for reference only.

Gene lethality score

Dependent Cell Lines Gene Dependency 0 0.5 1

Lethality score of HNRNPR in different cells

37.1%>0.5
All cells
0
Non-essential gene
0.5
Boundary score
1
Essential gene
More details

EZ-editor™ Gene Expression Level

Result

In all cell lines, there is 0.1% cells with low expression level, 99.9% cells with medium expression level of HNRNPR gene. Cell line is not selected, unable to assess the accurate expression level, for reference only.

Gene Expression

Cell Lines Frequency log2(TPM+1) 0 2 4 6 8 10 12

TPM of HNRNPR in different cells

0.1%99.9%
All cells
0~0.5
Below cutoff
0.5~10
Low
10~1000
Medium
>1000
High
More details

EZ-editor™ Gene Copy Number

Result

In all cell lines, there is 68.4% cells with low copy number, 29.0% cells with medium copy number, 2.6% cells with high copy number of HNRNPR gene. Cell line is not selected, unable to assess the accurate copy number, for reference only.

Gene Copy Number

Copy number 0 1 2 3 4 5 6 7 0 100 200 300 400 500 600Cell Lines

Copy number of HNRNPR in different cells

68.4%29.0%2.6%
All cells
0~2
Low
2~4
Medium
>4
High
More details
Work flow
Ubigene Red Cotton Workflow

Ubigene - Make genome editing easier

Ubigene is an international high-technology enterprise focused on gene-editing cells. Our exclusive EZ-editor™ technology has 10-20 times more efficient editing than traditional methods, easily achieving gene knockout, point mutation, and knock-in. Based on EZ-editor™ technology, Ubigene has accumulated over 6000 successful gene-editing cases from more than 300 cell lines including iPSC and ESC, and has established a KO Cell Line Bank with 5000+ KO cell lines and Red Cotton™ gRNA Plasmid Bank with 10000+ gRNA plasmids available in stock.

Ubigene focuses on technological innovation and product development, of which EZ-editor™ series products that cover the whole workflow of gene-editing keep improving. Ubigene will move on toward our goal of "Make genome editing easier" and we won't stop!

Cell products

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