Transcript: Human XM_005274380.1

PREDICTED: Homo sapiens ribosomal protein S6 kinase A4 (RPS6KA4), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
RPS6KA4 (8986)
Length:
2952
CDS:
64..2217

Additional Resources:

NCBI RefSeq record:
XM_005274380.1
NBCI Gene record:
RPS6KA4 (8986)

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 19% 4 0.7007 RPS6KA4 RPS6KA4 77920
2 BRDN0001149050 CTTGCTACGGATGATTTCGG pXPR_003 GGG 619 29% 6 0.4326 RPS6KA4 RPS6KA4 77921
3 BRDN0001487122 CGCCACGGGCCCGATCCGAG pXPR_003 GGG 790 37% 8 0.0326 RPS6KA4 RPS6KA4 77919
Download CSV

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_005274380.1, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000021518 CGAAATCATCCGTAGCAAGAC pLKO.1 681 CDS 100% 4.050 5.670 N RPS6KA4 n/a
2 TRCN0000021514 CCAGACAGAGCAGAAGTATTT pLKO.1 2349 3UTR 100% 13.200 10.560 N RPS6KA4 n/a
3 TRCN0000021517 ACCCTCCATTCTCTTTGACCA pLKO.1 987 CDS 100% 2.640 2.112 N RPS6KA4 n/a
4 TRCN0000199078 CGTCCACCAAAGACCCGTGTT pLKO.1 2656 3UTR 100% 1.350 1.080 N RPS6KA4 n/a
5 TRCN0000279791 CGTCCACCAAAGACCCGTGTT pLKO_005 2656 3UTR 100% 1.350 1.080 N RPS6KA4 n/a
6 TRCN0000199485 GCAGGGTGTATCCGAGGAAGC pLKO.1 1818 CDS 100% 0.000 0.000 N RPS6KA4 n/a
7 TRCN0000297323 GCAGGGTGTATCCGAGGAAGC pLKO_005 1818 CDS 100% 0.000 0.000 N RPS6KA4 n/a
8 TRCN0000021516 GCACAAGCTCGGCATCATTTA pLKO.1 519 CDS 100% 13.200 9.240 N RPS6KA4 n/a
9 TRCN0000279790 GCACAAGCTCGGCATCATTTA pLKO_005 519 CDS 100% 13.200 9.240 N RPS6KA4 n/a
10 TRCN0000199770 GCCACCTTCATGGCATTCAAC pLKO.1 2008 CDS 100% 4.950 3.465 N RPS6KA4 n/a
11 TRCN0000021515 CCGAAATCATCCGTAGCAAGA pLKO.1 680 CDS 100% 4.050 2.835 N RPS6KA4 n/a
12 TRCN0000195726 CCTCACTTTATGTCATCTGCT pLKO.1 2724 3UTR 100% 2.640 1.848 N RPS6KA4 n/a
13 TRCN0000199015 CGTGGAGAACTTCGAGCTGCT pLKO.1 150 CDS 100% 0.720 0.504 N RPS6KA4 n/a
14 TRCN0000297322 CGTGGAGAACTTCGAGCTGCT pLKO_005 150 CDS 100% 0.720 0.504 N RPS6KA4 n/a
Download CSV

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_005274380.1, 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.

Download CSV

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% 92.8% 92.7% V5 (not translated due to prior stop codon) 903_904ins165;1120C>T n/a
2 ccsbBroadEn_11324 pDONR223 100% 70.1% 66.8% None (many diffs) n/a
3 ccsbBroad304_11324 pLX_304 0% 70.1% 66.8% V5 (many diffs) n/a
4 TRCN0000471622 TCCTTCTTACCGCACCACTCCGAC pLX_317 26.1% 70.1% 66.8% V5 (many diffs) n/a
5 ccsbBroadEn_14920 pDONR223 0% 70.1% 66.8% None (many diffs) n/a
6 ccsbBroad304_14920 pLX_304 0% 70.1% 66.8% V5 (many diffs) n/a
7 TRCN0000468901 ACACAAGCGCTTCACCGCCTAGGA pLX_317 26.1% 70.1% 66.8% V5 (many diffs) n/a
Download CSV