Transcript: Mouse XM_006504836.4

PREDICTED: Mus musculus cyclin-dependent kinase 8 (Cdk8), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-08-08
Taxon:
Mus musculus (mouse)
Gene:
Cdk8 (264064)
Length:
3451
CDS:
899..2278

Additional Resources:

NCBI RefSeq record:
XM_006504836.4
NBCI Gene record:
Cdk8 (264064)

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.

No results found.

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

This list includes all shRNAs that have a perfect SDR[?] match to Mouse XM_006504836.4, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000322391 CATGGGCTTTGCCCGATTATT pLKO_005 1417 CDS 100% 15.000 21.000 N Cdk8 n/a
2 TRCN0000362345 TATATTTGCAGAACTACTAAC pLKO_005 1549 CDS 100% 10.800 15.120 N Cdk8 n/a
3 TRCN0000023268 CGATAAAGACTACGCTTTAAA pLKO.1 1033 CDS 100% 1.500 2.100 N LOC219029 n/a
4 TRCN0000322410 CTAACGTCAGAACCAATATTT pLKO_005 1565 CDS 100% 15.000 10.500 N Cdk8 n/a
5 TRCN0000350308 CTAACGTCAGAACCAATATTT pLKO_005 1565 CDS 100% 15.000 10.500 N CDK8 n/a
6 TRCN0000322326 GCATGACCTCTGGCATATAAT pLKO_005 1201 CDS 100% 15.000 10.500 N Cdk8 n/a
7 TRCN0000322327 GTCTTATCAGTGGGTTGATTC pLKO_005 2758 3UTR 100% 10.800 7.560 N Cdk8 n/a
8 TRCN0000023266 CAGGGATTTGAAACCTGCTAA pLKO.1 1345 CDS 100% 4.950 3.465 N LOC219029 n/a
9 TRCN0000023107 CCTGATGAGAAAGGAGACAAA pLKO.1 1973 CDS 100% 4.950 3.465 N Cdk8 n/a
10 TRCN0000023264 GCCTTATCAAGTATATGGAAA pLKO.1 1758 CDS 100% 4.950 3.465 N LOC219029 n/a
11 TRCN0000023105 GCGACATTATACCAAAGCAAT pLKO.1 1522 CDS 100% 4.950 3.465 N Cdk8 n/a
12 TRCN0000023106 CCCGATTATTTAATTCACCTT pLKO.1 1428 CDS 100% 2.640 1.848 N Cdk8 n/a
13 TRCN0000023108 GCAGATAAAGATTGGGAAGAT pLKO.1 1670 CDS 100% 4.950 2.970 N Cdk8 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_006504836.4, 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_00281 pDONR223 100% 92.8% 97.8% None (many diffs) n/a
2 ccsbBroad304_00281 pLX_304 43.6% 92.8% 97.8% V5 (many diffs) n/a
3 TRCN0000491308 AAAACCCTGTGTGATATTATTCCA pLX_317 24.9% 92.8% 97.8% V5 (not translated due to prior stop codon) (many diffs) n/a
4 ccsbBroadEn_14578 pDONR223 0% 92.7% 97.6% None (many diffs) n/a
5 TRCN0000470983 CCGCTCGAGGCCCAGAGGACATAG pLX_317 29.7% 92.7% 97.6% V5 (many diffs) n/a
6 ccsbBroad304_14578 pLX_304 50.6% 80% 47.1% V5 (not translated due to prior stop codon) (many diffs) n/a
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