Transcript: Mouse XM_017317836.1

PREDICTED: Mus musculus nuclear receptor subfamily 3, group C, member 1 (Nr3c1), transcript variant X11, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Nr3c1 (14815)
Length:
6115
CDS:
428..2806

Additional Resources:

NCBI RefSeq record:
XM_017317836.1
NBCI Gene record:
Nr3c1 (14815)

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 Mouse XM_017317836.1, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000026182 CCGCAGCCAGATTTATCCAAA pLKO.1 701 CDS 100% 4.950 6.930 N Nr3c1 n/a
2 TRCN0000026159 GAGGTGTTATATGCAGGATAT pLKO.1 2096 CDS 100% 10.800 8.640 N Nr3c1 n/a
3 TRCN0000238460 AGGATTGCAAGCCTCTTATTT pLKO_005 1206 CDS 100% 15.000 10.500 N Nr3c1 n/a
4 TRCN0000238463 TGAGATTCGAATGACTTATAT pLKO_005 2533 CDS 100% 15.000 10.500 N Nr3c1 n/a
5 TRCN0000238461 TTTGCTCCTGATCTGATTATT pLKO_005 2339 CDS 100% 15.000 10.500 N Nr3c1 n/a
6 TRCN0000026186 CCCAGAGATGTTAGCTGAAAT pLKO.1 2719 CDS 100% 13.200 9.240 N Nr3c1 n/a
7 TRCN0000026223 CTGGAGATACAATCTTATCAA pLKO.1 1257 CDS 100% 5.625 3.938 N Nr3c1 n/a
8 TRCN0000026157 GCTGTTTATCTCCACTGAATT pLKO.1 2410 CDS 100% 0.000 0.000 N Nr3c1 n/a
9 TRCN0000238462 TGTTGATGGATATCCTATAAG pLKO_005 4472 3UTR 100% 13.200 7.920 N Nr3c1 n/a
10 TRCN0000238464 TGGATAAGTCCATGAGTATTG pLKO_005 2694 CDS 100% 10.800 6.480 N Nr3c1 n/a
11 TRCN0000370080 CTGTGGATGATGGTTACAATG pLKO_005 3631 3UTR 100% 10.800 7.560 N SUOX 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_017317836.1, 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_00693 pDONR223 100% 87.3% 88.3% None (many diffs) n/a
2 ccsbBroad304_00693 pLX_304 0% 87.3% 88.3% V5 (many diffs) n/a
3 TRCN0000469869 CTCAGCCACGCCAAAACGTATTAA pLX_317 16.6% 87.3% 88.3% V5 (many diffs) n/a
4 TRCN0000488070 CTCCATCCTAACTGATTCTATTAG pLX_317 14.5% 87.2% 88.1% V5 (not translated due to prior stop codon) (many diffs) n/a
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