Transcript: Human XM_017022075.2

PREDICTED: Homo sapiens VPS33B late endosome and lysosome associated (VPS33B), transcript variant X4, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
VPS33B (26276)
Length:
2764
CDS:
952..2460

Additional Resources:

NCBI RefSeq record:
XM_017022075.2
NBCI Gene record:
VPS33B (26276)

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 Human XM_017022075.2, 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 TRCN0000230746 ACACGAAGTAGACAAGCTATA pLKO_005 770 5UTR 100% 10.800 15.120 N VPS33B n/a
2 TRCN0000157701 CAAGTGGTTTATGAGGGCCTA pLKO.1 1336 CDS 100% 2.160 3.024 N VPS33B n/a
3 TRCN0000157702 CGAATCATTGAGCAGGTGCTA pLKO.1 2173 CDS 100% 2.640 2.112 N VPS33B n/a
4 TRCN0000230747 ATGCCGAGGACAAGGTGTTTA pLKO_005 1445 CDS 100% 13.200 9.240 N VPS33B n/a
5 TRCN0000230748 TCTGGCACCCAGCTGCTATAA pLKO_005 2521 3UTR 100% 13.200 9.240 N VPS33B n/a
6 TRCN0000218215 GCATTCACAGATATGACTAAG pLKO_005 2254 CDS 100% 10.800 7.560 N VPS33B n/a
7 TRCN0000155072 GCCAGAGATTGGACATATCTT pLKO.1 1272 CDS 100% 5.625 3.938 N VPS33B n/a
8 TRCN0000155465 GCTGCAGGAAAGATTACTGAT pLKO.1 2005 CDS 100% 4.950 3.465 N VPS33B n/a
9 TRCN0000158025 CCTGAACACATTCCTCAGTGA pLKO.1 2490 3UTR 100% 2.640 1.848 N VPS33B n/a
10 TRCN0000156534 GCTGCTATAACCAAGTGTCCA pLKO.1 2532 3UTR 100% 2.640 1.848 N VPS33B n/a
11 TRCN0000219105 CTTGTCAATGCTGACAAATTG pLKO_005 882 5UTR 100% 1.320 0.924 N VPS33B n/a
12 TRCN0000157189 GCCGAGGACAAGGTGTTTAAT pLKO.1 1447 CDS 100% 15.000 9.000 N VPS33B 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_017022075.2, 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_08011 pDONR223 100% 79.6% 78% None (many diffs) n/a
2 ccsbBroad304_08011 pLX_304 0% 79.6% 78% V5 (many diffs) n/a
3 TRCN0000475288 CGTTACGATGTCGAATTTACTGGT pLX_317 13.6% 79.6% 78% V5 (many diffs) n/a
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