Transcript: Mouse XM_006509023.3

PREDICTED: Mus musculus inhibitor of kappaB kinase beta (Ikbkb), transcript variant X5, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Ikbkb (16150)
Length:
1389
CDS:
130..1374

Additional Resources:

NCBI RefSeq record:
XM_006509023.3
NBCI Gene record:
Ikbkb (16150)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001145640 GCCATGGAGTACTGCCAAGG pXPR_003 AGG 299 24% 4 0.2672 Ikbkb IKBKB 76088
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Mouse XM_006509023.3, 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 TRCN0000337474 CGAAGTGGACATCGTTGTTAG pLKO_005 846 CDS 100% 10.800 8.640 N Ikbkb n/a
2 TRCN0000026945 CGTTGTTAGTGAAGACTTGAA pLKO.1 858 CDS 100% 4.950 3.960 N Ikbkb n/a
3 TRCN0000026891 GCTCTTAGATACCTTCACGAA pLKO.1 523 CDS 100% 2.640 2.112 N Ikbkb n/a
4 TRCN0000337475 GGCAGTCTGTGCACGTCATTT pLKO_005 655 CDS 100% 13.200 9.240 N Ikbkb n/a
5 TRCN0000350868 GATGAGTCTCCTCCGGAATAA pLKO_005 1370 CDS 100% 13.200 9.240 N Ikbkb 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_006509023.3, 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_00841 pDONR223 100% 81.6% 84.4% None (many diffs) n/a
2 ccsbBroad304_00841 pLX_304 53.3% 81.6% 84.4% V5 (many diffs) n/a
3 TRCN0000477990 GGTACCTCTGAAAACAACGAACAT pLX_317 32.8% 81.6% 84.4% V5 (many diffs) n/a
4 TRCN0000489474 CATCAGAGCTTCTTGCTCATCAGT pLX_317 17.5% 48.5% 51.3% V5 (many diffs) n/a
5 TRCN0000487969 TCACTCTGCATCGTATCCGTTGCT pLX_317 13.6% 48.5% 51.3% V5 (not translated due to prior stop codon) (many diffs) n/a
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