Transcript: Human XM_011543920.3

PREDICTED: Homo sapiens cyclin dependent kinase 16 (CDK16), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CDK16 (5127)
Length:
2751
CDS:
99..1814

Additional Resources:

NCBI RefSeq record:
XM_011543920.3
NBCI Gene record:
CDK16 (5127)

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 BRDN0001147125 TCAGACTGGAACATGAAGAG pXPR_003 GGG 825 48% 6 0.8259 CDK16 CDK16 76903
2 BRDN0001146694 TTACTAGGCTGACACGACGG pXPR_003 AGG 671 39% 4 0.5318 CDK16 CDK16 76901
3 BRDN0001147123 GCCACCAGAGATTGTGCACG pXPR_003 AGG 433 25% 3 -0.7122 CDK16 CDK16 76902
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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_011543920.3, 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 TRCN0000010250 CGAGGCATAGACAAGACCAAT pLKO.1 375 CDS 100% 4.950 6.930 N CDK16 n/a
2 TRCN0000194881 CTACACTTCATCTTCCGTATC pLKO.1 1431 CDS 100% 6.000 4.800 N CDK16 n/a
3 TRCN0000197254 GCCTATCTGAGATTGGCTTTG pLKO.1 778 CDS 100% 6.000 4.200 N CDK16 n/a
4 TRCN0000010249 CGAGGAGTTCAAGACATACAA pLKO.1 1496 CDS 100% 5.625 3.938 N CDK16 n/a
5 TRCN0000342416 CGAGGAGTTCAAGACATACAA pLKO_005 1496 CDS 100% 5.625 3.938 N CDK16 n/a
6 TRCN0000010258 GGACCTCAAACACGCCAACAT pLKO.1 968 CDS 100% 4.950 3.465 N CDK16 n/a
7 TRCN0000342372 GGACCTCAAACACGCCAACAT pLKO_005 968 CDS 100% 4.950 3.465 N CDK16 n/a
8 TRCN0000010251 GACCTACATTAAGCTGGACAA pLKO.1 809 CDS 100% 4.050 2.835 N CDK16 n/a
9 TRCN0000352623 GACCTACATTAAGCTGGACAA pLKO_005 809 CDS 100% 4.050 2.835 N CDK16 n/a
10 TRCN0000196804 GCAATATCTCTGTATACAGAC pLKO.1 2066 3UTR 100% 4.050 2.835 N CDK16 n/a
11 TRCN0000010259 CCCAACAAAGACATACTCCAA pLKO.1 1259 CDS 100% 2.640 1.848 N CDK16 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_011543920.3, 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 ccsbBroadEn_01155 pDONR223 100% 85% 84.3% None (many diffs) n/a
2 ccsbBroad304_01155 pLX_304 0% 85% 84.3% V5 (many diffs) n/a
3 TRCN0000471969 GATAATGGTTATAGACATAATCGT pLX_317 32.6% 85% 84.3% V5 (many diffs) n/a
4 ccsbBroadEn_06698 pDONR223 100% 84.9% 84.3% None (many diffs) n/a
5 ccsbBroad304_06698 pLX_304 0% 84.9% 84.3% V5 (many diffs) n/a
6 TRCN0000471737 CCAATCAACCGGGCCCCGAAACTC pLX_317 4.1% 84.9% 84.3% V5 (many diffs) n/a
7 ccsbBroadEn_14730 pDONR223 0% 84.9% 84.3% None (many diffs) n/a
8 ccsbBroad304_14730 pLX_304 0% 84.9% 84.3% V5 (many diffs) n/a
9 TRCN0000470260 TTAACTTACATAATTTAAGGATTG pLX_317 25.1% 84.9% 84.3% V5 (many diffs) n/a
10 TRCN0000489123 TGATCAGTTCGAGGTAGGCTTTCC pLX_317 25% 84.9% 84.3% V5 (not translated due to prior stop codon) (many diffs) n/a
11 ccsbBroadEn_11022 pDONR223 100% 76.6% 76% None (many diffs) n/a
12 ccsbBroad304_11022 pLX_304 0% 76.6% 76% V5 (many diffs) n/a
13 TRCN0000473400 TCCTTCCCTGAATCACTGGTACTA pLX_317 41.2% 76.6% 76% V5 (many diffs) n/a
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