Transcript: Human XM_017007086.1

PREDICTED: Homo sapiens NIMA related kinase 4 (NEK4), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NEK4 (6787)
Length:
4194
CDS:
201..2675

Additional Resources:

NCBI RefSeq record:
XM_017007086.1
NBCI Gene record:
NEK4 (6787)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the coding regions of this transcript.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001146180 ACAATGTCAGAGGACCACAT pXPR_003 GGG 1281 52% 7 0.4249 NEK4 NEK4 77710
2 BRDN0001148553 CTGAAGAAAGGCCGTCTGTG pXPR_003 AGG 753 30% 5 0.0414 NEK4 NEK4 77711
3 BRDN0001146359 CTTCCCTGTCTCGACAGCGA pXPR_003 CGG 1467 59% 8 -0.3106 NEK4 NEK4 77712
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_017007086.1, regardless of what transcript they were originally designed to target. For example, this list can include shRNAs that were originally designed to target: (i) a different isoform or obsolete version of this transcript (as annotated by NCBI), (ii) a transcript of an orthologous gene (in this collection, generally human-to-mouse or mouse-to-human), or (iii) a transcript of a different gene (from the same or different taxon).

Clone ID Target Seq Vector Match Position Match Region[?] SDR Match %[?] Intrinsic Score[?] Adjusted Score[?] Matches Other Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000001698 CCACAATCAGTAGCGTAAATA pLKO.1 1279 CDS 100% 15.000 21.000 N NEK4 n/a
2 TRCN0000196265 GCGTAAATATTGACATCTTAC pLKO.1 1291 CDS 100% 10.800 15.120 N NEK4 n/a
3 TRCN0000001699 CCAGCTCTTGTCTCAGTTGAA pLKO.1 362 CDS 100% 4.950 3.960 N NEK4 n/a
4 TRCN0000194937 CATCAAAGGATCGACCATTAT pLKO.1 1882 CDS 100% 13.200 9.240 N NEK4 n/a
5 TRCN0000197013 GAAGGGAAAGGTCAGACAAAT pLKO.1 2151 CDS 100% 13.200 9.240 N NEK4 n/a
6 TRCN0000195511 CCCTGAAACTGGATTCTAAAG pLKO.1 2206 CDS 100% 10.800 7.560 N NEK4 n/a
7 TRCN0000196243 GCAGAACTGATAAGAACAATG pLKO.1 903 CDS 100% 10.800 7.560 N NEK4 n/a
8 TRCN0000001695 CCTACTACATGAGCCCTGAAT pLKO.1 709 CDS 100% 4.950 3.465 N NEK4 n/a
9 TRCN0000001696 CGGCAAGCAGTATGTCATCAA pLKO.1 284 CDS 100% 4.950 3.465 N NEK4 n/a
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shRNA constructs with at least a near match to this transcript

This list includes shRNAs that have at least a >84% (16 of 19 bases) SDR[?] match to the transcript XM_017007086.1, regardless of what transcript they were originally designed to target. For example, this list can include shRNAs that were originally designed to target: (i) a different isoform or obsolete version of this transcript (as annotated by NCBI), (ii) a transcript of an orthologous gene (in this collection, generally human-to-mouse or mouse-to-human), or (iii) a transcript of a different gene (from the same or different taxon). NOTE: this download is a superset of the above result set.

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All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 TRCN0000489189 GAAACGACAAGCGCAACCCGACTA pLX_317 16.1% 89% 86.2% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_14849 pDONR223 64.5% 88.7% 28.3% None (many diffs) n/a
3 ccsbBroad304_14849 pLX_304 0% 88.7% 28.3% V5 (not translated due to prior stop codon) (many diffs) n/a
4 TRCN0000471117 GTAGCGTTGCACTCCATGGACCCG pLX_317 19.8% 88.7% 28.3% V5 (not translated due to prior stop codon) (many diffs) n/a
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