Transcript: Human NM_001321221.2

Homo sapiens NIMA related kinase 11 (NEK11), transcript variant 5, mRNA.

Source:
NCBI, updated 2019-05-31
Taxon:
Homo sapiens (human)
Gene:
NEK11 (79858)
Length:
3052
CDS:
300..2363

Additional Resources:

NCBI RefSeq record:
NM_001321221.2
NBCI Gene record:
NEK11 (79858)

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 BRDN0001146419 GAGTTGACTACATGCATGAG pXPR_003 AGG 576 28% 6 1.383 NEK11 NEK11 75562
2 BRDN0001145274 CATTATCACGGAGTACTGTG pXPR_003 AGG 331 16% 4 0.6699 NEK11 NEK11 75561
3 BRDN0001147265 CCAAGGCTATGACACAAAGT pXPR_003 CGG 760 37% 8 0.5762 NEK11 NEK11 75563
4 BRDN0001144720 TCAGACAAGAAAGCCAAACG pXPR_003 AGG 155 8% 3 0.1811 NEK11 NEK11 75560
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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_001321221.2, 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 TRCN0000001965 CCTTACCTTGATGAGCAGCTA pLKO.1 1278 CDS 100% 2.640 2.112 N NEK11 n/a
2 TRCN0000001961 CCAAACGAGGAGAGGAATTAA pLKO.1 451 CDS 100% 15.000 10.500 N NEK11 n/a
3 TRCN0000196552 GAACCTAATGTGTAGATATTC pLKO.1 1301 CDS 100% 13.200 9.240 N NEK11 n/a
4 TRCN0000195420 CACCAAGGCTATGACACAAAG pLKO.1 1041 CDS 100% 10.800 7.560 N NEK11 n/a
5 TRCN0000197110 GCCTATGCTTGGAGTCATAAG pLKO.1 2534 3UTR 100% 10.800 7.560 N NEK11 n/a
6 TRCN0000001964 CCATGACTAATAAGGAAGATA pLKO.1 2868 3UTR 100% 5.625 3.938 N NEK11 n/a
7 TRCN0000001962 CCAGAGAAAGAAATCAGGAAT pLKO.1 1929 CDS 100% 4.950 3.465 N NEK11 n/a
8 TRCN0000001963 GCGTTAGAAAGACCAGAGAAA pLKO.1 1917 CDS 100% 4.950 3.465 N NEK11 n/a
9 TRCN0000196426 GTTGGAGAACTAAATCCAAAT pLKO.1 492 CDS 100% 1.080 0.756 N NEK11 n/a
10 TRCN0000128231 GAGGACACAAACAAATGGAAA pLKO.1 681 CDS 100% 4.950 2.475 Y POT1-AS1 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_001321221.2, 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 TRCN0000492172 ATTCGGGGACAGATACCACACACA pLX_317 11.9% 93.8% 93.7% V5 (not translated due to prior stop codon) 335_460del;1589A>T n/a
2 TRCN0000492116 ATGACATGCCTCATGTTCAACCCG pLX_317 21.2% 93.7% 93.6% V5 335_460del;1589A>T;2061_2062insG n/a
3 ccsbBroadEn_12637 pDONR223 100% 69.3% 68.1% None (many diffs) n/a
4 ccsbBroad304_12637 pLX_304 0% 69.3% 68.1% V5 (many diffs) n/a
5 TRCN0000479883 TGAGCAGACTTAGGCATAAAATCC pLX_317 21.7% 69.3% 68.1% V5 (many diffs) n/a
6 ccsbBroadEn_15155 pDONR223 0% 69.3% 68.1% None (many diffs) n/a
7 ccsbBroad304_15155 pLX_304 0% 69.3% 68.1% V5 (many diffs) n/a
8 TRCN0000480956 CCGAAGCATACCGGTGCCTATACC pLX_317 32.6% 69.3% 68.1% V5 (many diffs) n/a
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