Transcript: Human NM_001199899.1

Homo sapiens pyruvate dehydrogenase kinase 2 (PDK2), transcript variant 3, mRNA.

Source:
NCBI, updated 2019-06-08
Taxon:
Homo sapiens (human)
Gene:
PDK2 (5164)
Length:
2511
CDS:
191..1222

Additional Resources:

NCBI RefSeq record:
NM_001199899.1
NBCI Gene record:
PDK2 (5164)

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 BRDN0001148391 CAGGAGCTTAGCCATGTCGT pXPR_003 AGG 424 41% 6 1.106 PDK2 PDK2 75687
2 BRDN0001145761 GGTGCTGCCATCAAAGATGA pXPR_003 GGG 331 32% 5 0.5121 PDK2 PDK2 75685
3 BRDN0001146093 CTCCAAACAGCCGATTCACA pXPR_003 TGG 517 50% 7 -0.4493 PDK2 PDK2 75686
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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_001199899.1, 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 TRCN0000197089 GCTCCTGTGTGACAAGTATTA pLKO.1 625 CDS 100% 13.200 10.560 N PDK2 n/a
2 TRCN0000023842 CCTGTGTGACAAGTATTACAT pLKO.1 628 CDS 100% 5.625 3.938 N Pdk2 n/a
3 TRCN0000322005 CCTGTGTGACAAGTATTACAT pLKO_005 628 CDS 100% 5.625 3.938 N Pdk2 n/a
4 TRCN0000195527 CCAACCAGAACATCCAGTACT pLKO.1 438 CDS 100% 4.950 3.465 N PDK2 n/a
5 TRCN0000197277 GAGGAAGATTGAGCGACTCTT pLKO.1 889 CDS 100% 4.950 3.465 N PDK2 n/a
6 TRCN0000002315 ACAGCCGATTCACATGGTCTA pLKO.1 697 CDS 100% 4.050 2.835 N PDK2 n/a
7 TRCN0000002317 AGGAGATCAATGCAGCCAACT pLKO.1 672 CDS 100% 4.050 2.835 N PDK2 n/a
8 TRCN0000002318 ACCTTGTTAGACCGAGAGCTT pLKO.1 1823 3UTR 100% 2.640 1.848 N PDK2 n/a
9 TRCN0000199593 GCCGTGCATCTGCACCTGAGA pLKO.1 1228 3UTR 100% 0.000 0.000 N PDK2 n/a
10 TRCN0000002314 CACCTCTACCACATGCTCTTT pLKO.1 728 CDS 100% 4.950 2.970 N PDK2 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_001199899.1, 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 ccsbBroadEn_01166 pDONR223 100% 84.2% 84.2% None 0_1ins192 n/a
2 ccsbBroad304_01166 pLX_304 0% 84.2% 84.2% V5 0_1ins192 n/a
3 TRCN0000480761 CTTTTTCCCATACTAGCCCAATTG pLX_317 34.6% 84.2% 84.2% V5 0_1ins192 n/a
4 ccsbBroadEn_14738 pDONR223 0% 84.2% 84.2% None 0_1ins192 n/a
5 ccsbBroad304_14738 pLX_304 0% 84.2% 84.2% V5 0_1ins192 n/a
6 TRCN0000488642 TTTTAGCACGTTTTCCGACTGCTG pLX_317 28.4% 84.2% 84.2% V5 (not translated due to prior stop codon) 0_1ins192 n/a
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