Transcript: Human NM_001321227.2

Homo sapiens histone deacetylase 6 (HDAC6), transcript variant 3, mRNA.

Source:
NCBI, updated 2019-09-03
Taxon:
Homo sapiens (human)
Gene:
HDAC6 (10013)
Length:
4248
CDS:
237..3884

Additional Resources:

NCBI RefSeq record:
NM_001321227.2
NBCI Gene record:
HDAC6 (10013)

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

This list includes all shRNAs that have a perfect SDR[?] match to Human NM_001321227.2, 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 TRCN0000314908 CTCACTGATCAGGCCATATTT pLKO_005 3528 CDS 100% 15.000 21.000 N HDAC6 n/a
2 TRCN0000314910 GTCACTTCGAAGCGAAATATT pLKO_005 321 CDS 100% 15.000 21.000 N HDAC6 n/a
3 TRCN0000314909 TATCCTAGAGGGTGGCTATAA pLKO_005 2564 CDS 100% 13.200 18.480 N HDAC6 n/a
4 TRCN0000381610 TCCCATTGCCTACGAGTTTAA pLKO_005 2408 CDS 100% 13.200 18.480 N HDAC6 n/a
5 TRCN0000380796 CCCAATCTAGCGGAGGTAAAG pLKO_005 369 CDS 100% 10.800 15.120 N HDAC6 n/a
6 TRCN0000381582 GAGGGTCCTTATCGTAGATTG pLKO_005 971 CDS 100% 10.800 15.120 N HDAC6 n/a
7 TRCN0000199967 CGGAGGGTCCTTATCGTAGAT pLKO.1 969 CDS 100% 4.950 6.930 N HDAC6 n/a
8 TRCN0000004842 CGGTAATGGAACTCAGCACAT pLKO.1 2192 CDS 100% 4.050 5.670 N HDAC6 n/a
9 TRCN0000350401 CGGTAATGGAACTCAGCACAT pLKO_005 2192 CDS 100% 4.050 5.670 N HDAC6 n/a
10 TRCN0000194771 CAACTTTGACTCCATCTATAT pLKO.1 1928 CDS 100% 13.200 9.240 N HDAC6 n/a
11 TRCN0000004843 CCTCACTGATCAGGCCATATT pLKO.1 3527 CDS 100% 13.200 9.240 N HDAC6 n/a
12 TRCN0000004840 GCCTACGAGTTTAACCCAGAA pLKO.1 2415 CDS 100% 4.050 2.835 N HDAC6 n/a
13 TRCN0000004839 CATCCCATCCTGAATATCCTT pLKO.1 3983 3UTR 100% 3.000 2.100 N HDAC6 n/a
14 TRCN0000314976 CATCCCATCCTGAATATCCTT pLKO_005 3983 3UTR 100% 3.000 2.100 N HDAC6 n/a
15 TRCN0000004841 GCACAGTCTTATGGATGGCTA pLKO.1 890 CDS 100% 2.640 1.848 N HDAC6 n/a
Download CSV

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_001321227.2, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 TRCN0000489770 GAAGAAAACACCGAGAGAACTGCA pLX_317 9.4% 99.9% 100% V5 (not translated due to prior stop codon) 2265A>G n/a
2 ccsbBroadEn_11446 pDONR223 100% 87.4% 87.4% None 1_456del n/a
3 ccsbBroad304_11446 pLX_304 0% 87.4% 87.4% V5 1_456del n/a
4 TRCN0000471558 GAAAAATATGGGGCTTAAGGCGCA pLX_317 13.3% 87.4% 87.4% V5 1_456del n/a
5 ccsbBroadEn_11445 pDONR223 100% 11.9% 11.9% None 438_3645delinsG n/a
6 ccsbBroad304_11445 pLX_304 0% 11.9% 11.9% V5 438_3645delinsG n/a
7 TRCN0000473847 ACACTGCCCGTATTCTGTATTAAG pLX_317 77.9% 11.9% 11.9% V5 438_3645delinsG n/a
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