Transcript: Mouse NM_011265.3

Mus musculus regulatory factor X, 3 (influences HLA class II expression) (Rfx3), transcript variant 1, mRNA.

Source:
NCBI, updated 2017-05-27
Taxon:
Mus musculus (mouse)
Gene:
Rfx3 (19726)
Length:
9187
CDS:
204..2453

Additional Resources:

NCBI RefSeq record:
NM_011265.3
NBCI Gene record:
Rfx3 (19726)

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 NM_011265.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000232127 GACCCAAGCCATTCGAAATTT pLKO_005 1568 CDS 100% 15.000 21.000 N RFX3 n/a
2 TRCN0000429600 GACCCAAGCCATTCGAAATTT pLKO_005 1568 CDS 100% 15.000 21.000 N Rfx3 n/a
3 TRCN0000412570 AGCTCGGGAGGAACCTATTTG pLKO_005 591 CDS 100% 13.200 18.480 N Rfx3 n/a
4 TRCN0000084614 GCGAAGATACACATCGCTCAA pLKO.1 1691 CDS 100% 4.050 5.670 N Rfx3 n/a
5 TRCN0000428889 CCATGGTTATCCGGGACTTAA pLKO_005 2020 CDS 100% 13.200 9.240 N Rfx3 n/a
6 TRCN0000431736 TTGGCAGCAGATGCATCAAAT pLKO_005 2890 3UTR 100% 13.200 9.240 N Rfx3 n/a
7 TRCN0000084617 CGTTGTTGTGAATCTTCAGTT pLKO.1 1301 CDS 100% 4.950 3.465 N Rfx3 n/a
8 TRCN0000084615 CCGAACAACAACTTATCCCTA pLKO.1 419 CDS 100% 2.640 1.848 N Rfx3 n/a
9 TRCN0000084616 CGTCACAAGTACACAGACCAT pLKO.1 2390 CDS 100% 2.640 1.848 N Rfx3 n/a
10 TRCN0000084613 CTGAAGGTTGACTGTTGTCAA pLKO.1 2527 3UTR 100% 0.495 0.347 N Rfx3 n/a
11 TRCN0000166364 CACACACACACACACACACAA pLKO.1 4109 3UTR 100% 4.950 2.475 Y KAAG1 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 NM_011265.3, 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_01393 pDONR223 100% 92.4% 98.9% None (many diffs) n/a
2 ccsbBroad304_01393 pLX_304 0% 92.4% 98.9% V5 (many diffs) n/a
3 ccsbBroadEn_11098 pDONR223 100% 50.8% 52.9% None (many diffs) n/a
4 ccsbBroad304_11098 pLX_304 0% 50.8% 52.9% V5 (many diffs) n/a
5 TRCN0000481511 AACTACTTAATTAAATATAGCAAC pLX_317 36.4% 50.8% 52.9% V5 (many diffs) n/a
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