Transcript: Human XR_934062.2

PREDICTED: Homo sapiens VPS53 subunit of GARP complex (VPS53), transcript variant X6, misc_RNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
VPS53 (55275)
Length:
1960
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_934062.2
NBCI Gene record:
VPS53 (55275)

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_934062.2, 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 TRCN0000429051 AGCAATCTCTGGCGAACATAG pLKO_005 301 3UTR 100% 10.800 15.120 N VPS53 n/a
2 TRCN0000420512 ACCGTCATCTCCAGCAGTATT pLKO_005 1828 3UTR 100% 13.200 9.240 N VPS53 n/a
3 TRCN0000434828 ATGCTGTTGAGTATATCAATA pLKO_005 265 3UTR 100% 13.200 9.240 N VPS53 n/a
4 TRCN0000180068 CCAGAAGTACCTCCGAGAATA pLKO.1 1545 3UTR 100% 13.200 9.240 N VPS53 n/a
5 TRCN0000148029 GAAAGAAATCACCCGTGATAT pLKO.1 512 3UTR 100% 13.200 9.240 N VPS53 n/a
6 TRCN0000418907 GATGCATGTCTGGTTGCTAAT pLKO_005 855 3UTR 100% 10.800 7.560 N VPS53 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_934062.2, 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.

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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_08503 pDONR223 100% 77.6% None (many diffs) n/a
2 ccsbBroad304_08503 pLX_304 0% 77.6% V5 (many diffs) n/a
3 TRCN0000465564 GATCAACGCACAGCAGCTATTTCC pLX_317 5.4% 77.6% V5 (many diffs) n/a
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