Transcript: Mouse XM_006528275.3

PREDICTED: Mus musculus histone deacetylase 8 (Hdac8), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Hdac8 (70315)
Length:
3908
CDS:
2647..3807

Additional Resources:

NCBI RefSeq record:
XM_006528275.3
NBCI Gene record:
Hdac8 (70315)

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_006528275.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000088000 GCAGATACTATTGCCGGAGAT pLKO.1 3442 CDS 100% 4.050 5.670 N Hdac8 n/a
2 TRCN0000088001 GTGGATTTGGATCTACACCAT pLKO.1 3169 CDS 100% 2.640 3.696 N Hdac8 n/a
3 TRCN0000088002 CCATAGAATATGGACTAGGTT pLKO.1 2924 CDS 100% 3.000 2.400 N Hdac8 n/a
4 TRCN0000314874 TTACGATTGCGACGGAAATTT pLKO_005 3133 CDS 100% 15.000 10.500 N HDAC8 n/a
5 TRCN0000087999 CTACAGTGTCAATGTGCCCAT pLKO.1 3318 CDS 100% 2.160 1.512 N Hdac8 n/a
6 TRCN0000195692 CACAGCATATGGTCCTGATTA pLKO.1 3657 CDS 100% 0.000 0.000 N HDAC8 n/a
7 TRCN0000166364 CACACACACACACACACACAA pLKO.1 1254 5UTR 100% 4.950 2.475 Y KAAG1 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_006528275.3, 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_08602 pDONR223 100% 87.9% 92.2% None (many diffs) n/a
2 ccsbBroad304_08602 pLX_304 0% 87.9% 92.2% V5 (many diffs) n/a
3 TRCN0000467791 AACTATTCCCAAGCGGCTCTCGTG pLX_317 32.5% 87.9% 92.2% V5 (many diffs) n/a
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