Transcript: Human XM_011514561.3

PREDICTED: Homo sapiens major histocompatibility complex, class II, DQ beta 2 (HLA-DQB2), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
HLA-DQB2 (3120)
Length:
1101
CDS:
83..742

Additional Resources:

NCBI RefSeq record:
XM_011514561.3
NBCI Gene record:
HLA-DQB2 (3120)

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_011514561.3, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000057248 CGAGGACTGGAACAACTATAA pLKO.1 337 CDS 100% 13.200 10.560 N HLA-DQB2 n/a
2 TRCN0000057252 CCAGAGACTTTCCCAAGGATT pLKO.1 165 CDS 100% 4.950 3.465 N HLA-DQB2 n/a
3 TRCN0000057250 GAACAACTATAAGGACTTCTT pLKO.1 346 CDS 100% 4.950 3.465 N HLA-DQB2 n/a
4 TRCN0000057249 CAAGGATTTCTTGGTCCAGTT pLKO.1 178 CDS 100% 4.050 2.835 N HLA-DQB2 n/a
5 TRCN0000057251 TGTGGCCAGATACATCTATAA pLKO.1 244 CDS 100% 13.200 7.920 N HLA-DQB2 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_011514561.3, 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_10881 pDONR223 100% 94.2% 94.3% None (many diffs) n/a
2 ccsbBroad304_10881 pLX_304 0% 94.2% 94.3% V5 (many diffs) n/a
3 TRCN0000469612 CAGTTAAGCTATTAAATCGTGGCT pLX_317 67.6% 94.2% 94.3% V5 (many diffs) n/a
4 ccsbBroadEn_06373 pDONR223 100% 74.8% 66.2% None (many diffs) n/a
5 ccsbBroad304_06373 pLX_304 0% 74.8% 66.2% V5 (many diffs) n/a
6 TRCN0000466673 CAAGGAACCGACCGTTGGATTCAT pLX_317 34.6% 74.8% 66.2% V5 (many diffs) n/a
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