Transcript: Mouse XM_006528400.3

PREDICTED: Mus musculus ribosomal protein S6 kinase polypeptide 6 (Rps6ka6), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Rps6ka6 (67071)
Length:
4326
CDS:
225..2807

Additional Resources:

NCBI RefSeq record:
XM_006528400.3
NBCI Gene record:
Rps6ka6 (67071)

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 BRDN0001146818 GTTGATGAGCCAATGGAAGA pXPR_003 GGG 464 18% 5 0.3219 Rps6ka6 RPS6KA6 75534
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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_006528400.3, 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 TRCN0000361771 TGATCTTAAGCCCAGTAATAT pLKO_005 2198 CDS 100% 15.000 21.000 N Rps6ka6 n/a
2 TRCN0000022778 CCAATGATACTCCTGAGGAAA pLKO.1 2449 CDS 100% 4.950 6.930 N Rps6ka6 n/a
3 TRCN0000022776 GCGACTTCTATTGCCGAAGAA pLKO.1 1746 CDS 100% 4.950 6.930 N Rps6ka6 n/a
4 TRCN0000361828 CTGAAGCACAAAGTCTATTAA pLKO_005 1465 CDS 100% 15.000 12.000 N Rps6ka6 n/a
5 TRCN0000022777 CCTATTACACAGCATGTTAAA pLKO.1 738 CDS 100% 13.200 9.240 N Rps6ka6 n/a
6 TRCN0000361770 TGGACCCACATCAGCGTTATA pLKO_005 2569 CDS 100% 13.200 9.240 N Rps6ka6 n/a
7 TRCN0000022775 GCCTGTGATATTTGGAGCTTA pLKO.1 2376 CDS 100% 4.950 3.465 N Rps6ka6 n/a
8 TRCN0000022774 CGCACAGTTTGACTTGCTCAA pLKO.1 782 CDS 100% 4.050 2.835 N Rps6ka6 n/a
9 TRCN0000002266 CTATGCAATGAAGGTGTTAAA pLKO.1 875 CDS 100% 13.200 9.240 N RPS6KA6 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_006528400.3, 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 TRCN0000489496 ATTAGTCCATTGAATGAACGATAT pLX_317 17.7% 75.5% 76.1% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_15044 pDONR223 74.3% 70.1% 21.9% None (many diffs) n/a
3 ccsbBroad304_15044 pLX_304 0% 70.1% 21.9% V5 (not translated due to prior stop codon) (many diffs) n/a
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