Transcript: Human NM_003157.6

Homo sapiens NIMA related kinase 4 (NEK4), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-08-22
Taxon:
Homo sapiens (human)
Gene:
NEK4 (6787)
Length:
6053
CDS:
195..2720

Additional Resources:

NCBI RefSeq record:
NM_003157.6
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 51% 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 1605 64% 9 -0.3084 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 NM_003157.6, 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 1273 CDS 100% 15.000 21.000 N NEK4 n/a
2 TRCN0000196265 GCGTAAATATTGACATCTTAC pLKO.1 1285 CDS 100% 10.800 15.120 N NEK4 n/a
3 TRCN0000194871 CCTTAAGGAGTAGTTGATAAA pLKO.1 3154 3UTR 100% 13.200 10.560 N NEK4 n/a
4 TRCN0000196710 GTCGTCATAATTCCTGCTATT pLKO.1 3125 3UTR 100% 10.800 8.640 N NEK4 n/a
5 TRCN0000001699 CCAGCTCTTGTCTCAGTTGAA pLKO.1 356 CDS 100% 4.950 3.960 N NEK4 n/a
6 TRCN0000194937 CATCAAAGGATCGACCATTAT pLKO.1 2014 CDS 100% 13.200 9.240 N NEK4 n/a
7 TRCN0000197013 GAAGGGAAAGGTCAGACAAAT pLKO.1 2283 CDS 100% 13.200 9.240 N NEK4 n/a
8 TRCN0000195511 CCCTGAAACTGGATTCTAAAG pLKO.1 2338 CDS 100% 10.800 7.560 N NEK4 n/a
9 TRCN0000196243 GCAGAACTGATAAGAACAATG pLKO.1 897 CDS 100% 10.800 7.560 N NEK4 n/a
10 TRCN0000001695 CCTACTACATGAGCCCTGAAT pLKO.1 703 CDS 100% 4.950 3.465 N NEK4 n/a
11 TRCN0000001696 CGGCAAGCAGTATGTCATCAA pLKO.1 278 CDS 100% 4.950 3.465 N NEK4 n/a
12 TRCN0000001697 GATTACTGTTTACTGAGCCTT pLKO.1 2965 3UTR 100% 2.640 1.848 N NEK4 n/a
13 TRCN0000082462 CCTCCCAAAGTGCCAGGATTA pLKO.1 3973 3UTR 100% 10.800 5.400 Y LOC388949 n/a
14 TRCN0000168774 GAGATGGAGTTTCACCATGTT pLKO.1 5478 3UTR 100% 4.950 2.475 Y LOC400464 n/a
15 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 4374 3UTR 100% 5.625 2.813 Y KLHL30 n/a
16 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 4374 3UTR 100% 5.625 2.813 Y EID2B 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 NM_003157.6, 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% 99.8% 99.8% V5 (not translated due to prior stop codon) 312T>G;468A>G;673C>G n/a
2 ccsbBroadEn_14849 pDONR223 64.5% 87.6% 27.8% None (many diffs) n/a
3 ccsbBroad304_14849 pLX_304 0% 87.6% 27.8% V5 (not translated due to prior stop codon) (many diffs) n/a
4 TRCN0000471117 GTAGCGTTGCACTCCATGGACCCG pLX_317 19.8% 87.6% 27.8% V5 (not translated due to prior stop codon) (many diffs) n/a
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