Transcript: Mouse XM_017318262.1

PREDICTED: Mus musculus ribosomal protein S6 kinase, polypeptide 4 (Rps6ka4), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Rps6ka4 (56613)
Length:
2562
CDS:
443..2473

Additional Resources:

NCBI RefSeq record:
XM_017318262.1
NBCI Gene record:
Rps6ka4 (56613)

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 BRDN0001146216 CCAGCGCCAGTACTTCAAGG pXPR_003 AGG 400 20% 4 0.7002 Rps6ka4 RPS6KA4 77920
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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_017318262.1, 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 TRCN0000022764 CGGAGAGCTATTGGAACACAT pLKO.1 1906 CDS 100% 4.950 3.465 N Rps6ka4 n/a
2 TRCN0000280568 CGGAGAGCTATTGGAACACAT pLKO_005 1906 CDS 100% 4.950 3.465 N Rps6ka4 n/a
3 TRCN0000022767 CCCTCGGATCTTTCAGGGATA pLKO.1 1498 CDS 100% 4.050 2.835 N Rps6ka4 n/a
4 TRCN0000022768 TGAGATGTTCACTCACCTCTA pLKO.1 805 CDS 100% 4.050 2.835 N Rps6ka4 n/a
5 TRCN0000280506 TGAGATGTTCACTCACCTCTA pLKO_005 805 CDS 100% 4.050 2.835 N Rps6ka4 n/a
6 TRCN0000022765 GCGCGAAGACACAGGAGCATA pLKO.1 666 CDS 100% 1.650 1.155 N Rps6ka4 n/a
7 TRCN0000280507 GCGCGAAGACACAGGAGCATA pLKO_005 666 CDS 100% 1.650 1.155 N Rps6ka4 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_017318262.1, 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 TRCN0000489074 ATCCTCGGACATCTAGAGCCCTCG pLX_317 16.1% 76.4% 82.3% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_11324 pDONR223 100% 63.5% 51.5% None (many diffs) n/a
3 ccsbBroad304_11324 pLX_304 0% 63.5% 51.5% V5 (many diffs) n/a
4 TRCN0000471622 TCCTTCTTACCGCACCACTCCGAC pLX_317 26.1% 63.5% 51.5% V5 (many diffs) n/a
5 ccsbBroadEn_14920 pDONR223 0% 63.5% 51.5% None (many diffs) n/a
6 ccsbBroad304_14920 pLX_304 0% 63.5% 51.5% V5 (many diffs) n/a
7 TRCN0000468901 ACACAAGCGCTTCACCGCCTAGGA pLX_317 26.1% 63.5% 51.5% V5 (many diffs) n/a
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