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EZ-editor™ Gene Knockout Cell Line Strategy

Senp1 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 Senp1 Knockout model in cell line by EZ-editor™-mediated genome engineering.
Target gene info
Official symbol
Senp1
Gene id
300193
Organism
Rattus norvegicus
Gene type
protein-coding
Official full symbol
SUMO specific peptidase 1
Genomic regions
Chromosome 7
Strategy Summary
This gene has 22 protein coding transcripts:
Transcript Length(nt) Protein Length(aa) Protein name Transcript type Transcript name ccds
XM_039080358 6215 XP_038936286 692 sentrin-specific protease 1 3 transcript variant X10
XM_039080359 6216 XP_038936287 692 sentrin-specific protease 1 3 transcript variant X9
XM_063264363 6169 XP_063120433 640 sentrin-specific protease 1 3 transcript variant X18
XM_063264361 6247 XP_063120431 666 sentrin-specific protease 1 3 transcript variant X15
XM_008765850 6205 XP_008764072 652 sentrin-specific protease 1 3 transcript variant X17
XM_008765848 6283 XP_008764070 678 sentrin-specific protease 1 3 transcript variant X12
XM_063264359 6289 XP_063120429 680 sentrin-specific protease 1 3 transcript variant X11
XM_017595317 6325 XP_017450806 692 sentrin-specific protease 1 3 transcript variant X7
XM_063264362 6175 XP_063120432 664 sentrin-specific protease 1 3 transcript variant X16
XM_063264360 6211 XP_063120430 676 sentrin-specific protease 1 3 transcript variant X13
XM_063264358 6289 XP_063120428 702 sentrin-specific protease 1 3 transcript variant X5
XM_017595314 6331 XP_017450803 716 sentrin-specific protease 1 3 transcript variant X2
XM_039080356 6382 XP_038936284 724 sentrin-specific protease 1 3 transcript variant X1
XM_039080357 6329 XP_038936285 692 sentrin-specific protease 1 3 transcript variant X8
XM_008765849 6170 XP_008764071 672 sentrin-specific protease 1 3 transcript variant X14
XM_008765844 6284 XP_008764066 710 sentrin-specific protease 1 3 transcript variant X4
XM_017595315 6290 XP_017450804 712 sentrin-specific protease 1 3 transcript variant X3
XM_017595316 6248 XP_017450805 698 sentrin-specific protease 1 3 transcript variant X6
XM_063264364 6114 XP_063120434 467 sentrin-specific protease 1 3 transcript variant X19
XM_063264365 6023 XP_063120435 467 sentrin-specific protease 1 3 transcript variant X20
XM_039080360 5599 XP_038936288 467 sentrin-specific protease 1 3 transcript variant X21
XM_039080361 2797 XP_038936289 393 sentrin-specific protease 1 3 transcript variant X22
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.
EZ-editor™ Gene Dependency
EZ-editor™ Gene Expression Level
EZ-editor™ Gene Copy Number

EZ-editor™ Gene Dependency

Result

The Senp1 gene you inquire is evaluated as high risk in 0% 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 Senp1 in different cells

0.2%>0.5
All cells
0
Non-essential gene
0.5
Boundary score
1
Essential gene

EZ-editor™ Gene Expression Level

Result

In all cell lines, there is 55.6% cells with low expression level, 44.4% cells with medium expression level of Senp1 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 Senp1 in different cells

55.6%44.4%
All cells
0~0.5
Below cutoff
0.5~10
Low
10~1000
Medium
>1000
High

EZ-editor™ Gene Copy Number

Result

In all cell lines, there is 57.5% cells with low copy number, 37.9% cells with medium copy number, 4.6% cells with high copy number of Senp1 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 Senp1 in different cells

57.5%37.9%4.6%
All cells
0~2
Low
2~4
Medium
>4
High
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

温馨提示

红棉系统新技能上线啦!基因风险评估:“火眼金睛”辨基因,致死风险一秒知。评估结果可在Red Cotton Assessment模块查看哦。