Transcript: Human XM_011542464.2

PREDICTED: Homo sapiens syndecan 3 (SDC3), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SDC3 (9672)
Length:
5326
CDS:
289..1581

Additional Resources:

NCBI RefSeq record:
XM_011542464.2
NBCI Gene record:
SDC3 (9672)

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_011542464.2, 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 TRCN0000422430 CTGCAACCTCTTGCTCGTATC pLKO_005 2040 3UTR 100% 6.000 8.400 N SDC3 n/a
2 TRCN0000118185 CACACTGCTCATCTATCGTAT pLKO.1 1464 CDS 100% 4.950 6.930 N SDC3 n/a
3 TRCN0000118183 GATGACTCCTTTCCCGATGAT pLKO.1 451 CDS 100% 4.950 6.930 N SDC3 n/a
4 TRCN0000434648 GGTAAACACAGCCCTTGAAAT pLKO_005 2009 3UTR 100% 13.200 9.240 N SDC3 n/a
5 TRCN0000118184 CTCATCTATCGTATGAAGAAA pLKO.1 1471 CDS 100% 5.625 3.938 N SDC3 n/a
6 TRCN0000118182 CCAGAAGAAGAGACCACACAA pLKO.1 1210 CDS 100% 4.950 3.465 N SDC3 n/a
7 TRCN0000423059 TGTGCCCTTACGAGCTCATCT pLKO_005 1781 3UTR 100% 4.950 3.465 N SDC3 n/a
8 TRCN0000118186 CGCAGTGAGAACTTCGAGAGA pLKO.1 403 CDS 100% 2.640 1.848 N SDC3 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_011542464.2, 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_11400 pDONR223 100% 84.5% 77.3% None (many diffs) n/a
2 ccsbBroad304_11400 pLX_304 0% 84.5% 77.3% V5 (many diffs) n/a
3 TRCN0000467286 GAACAGGAATGCGAATTAAGGCAG pLX_317 35.7% 84.5% 77.3% V5 (many diffs) n/a
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