Transcript: Human XR_001738776.1

PREDICTED: Homo sapiens pyruvate dehydrogenase kinase 1 (PDK1), transcript variant X16, misc_RNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PDK1 (5163)
Length:
2931
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001738776.1
NBCI Gene record:
PDK1 (5163)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

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

No results found.

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XR_001738776.1, 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 TRCN0000194672 CATCCGTTCAATTGGTACAAA pLKO.1 375 3UTR 100% 5.625 7.875 N PDK1 n/a
2 TRCN0000342424 CATCCGTTCAATTGGTACAAA pLKO_005 375 3UTR 100% 5.625 7.875 N PDK1 n/a
3 TRCN0000011007 CGTGAATATGTTGAAGTAGAA pLKO.1 2502 3UTR 100% 4.950 6.930 N PDK1 n/a
4 TRCN0000196891 GCTTAGCTAATCTGACCAAAT pLKO.1 1797 3UTR 100% 10.800 8.640 N PDK1 n/a
5 TRCN0000006262 CCAAACTGCAATGTACTTGAA pLKO.1 782 3UTR 100% 4.950 3.960 N PDK1 n/a
6 TRCN0000006260 CGGATCAGAAACCGACACAAT pLKO.1 551 3UTR 100% 4.950 3.960 N PDK1 n/a
7 TRCN0000194802 CAGATGCAGTTATCTACATTA pLKO.1 1192 3UTR 100% 13.200 9.240 N PDK1 n/a
8 TRCN0000196728 GAAGTAGAAGTCTACCATATT pLKO.1 2514 3UTR 100% 13.200 9.240 N PDK1 n/a
9 TRCN0000342381 GAAGTAGAAGTCTACCATATT pLKO_005 2514 3UTR 100% 13.200 9.240 N PDK1 n/a
10 TRCN0000006261 GCTCTGTCAACAGACTCAATA pLKO.1 1215 3UTR 100% 13.200 9.240 N PDK1 n/a
11 TRCN0000342426 GCTCTGTCAACAGACTCAATA pLKO_005 1215 3UTR 100% 13.200 9.240 N PDK1 n/a
12 TRCN0000197226 GACTCCCAGTGTATAACAAAG pLKO.1 1240 3UTR 100% 10.800 7.560 N PDK1 n/a
13 TRCN0000006263 CCAGGGTGTGATTGAATACAA pLKO.1 592 3UTR 100% 5.625 3.938 N PDK1 n/a
14 TRCN0000342425 CCAGGGTGTGATTGAATACAA pLKO_005 592 3UTR 100% 5.625 3.938 N PDK1 n/a
15 TRCN0000196635 GATCAGTGAATGCTTGTGAAA pLKO.1 258 3UTR 100% 4.950 3.465 N PDK1 n/a
16 TRCN0000196729 GCACTAAATTTCACTATCTTC pLKO.1 2716 3UTR 100% 4.950 3.465 N PDK1 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 XR_001738776.1, 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_01165 pDONR223 100% 40.9% None (many diffs) n/a
2 ccsbBroad304_01165 pLX_304 0% 40.9% V5 (many diffs) n/a
3 TRCN0000479775 CCTTCCAGTTCTCGGGTGCTTTAC pLX_317 11.8% 40.9% V5 (many diffs) n/a
4 ccsbBroadEn_14737 pDONR223 0% 40.9% None (many diffs) n/a
5 ccsbBroad304_14737 pLX_304 0% 40.9% V5 (many diffs) n/a
6 TRCN0000481546 CCGGTGAGACCGACCATTCAGAAA pLX_317 33.8% 40.9% V5 (many diffs) n/a
7 TRCN0000488543 ATACCTAATTACACCCTATCTTTA pLX_317 20.4% 40.9% V5 (many diffs) n/a
8 TRCN0000491614 CTAGCTGAGTGTCGGCTGGCCGCT pLX_317 33.2% 40.9% V5 (not translated due to prior stop codon) (many diffs) n/a
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