Transcript: Human XM_011530919.2

PREDICTED: Homo sapiens ribosomal protein S6 kinase A6 (RPS6KA6), transcript variant X5, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
RPS6KA6 (27330)
Length:
2714
CDS:
484..2412

Additional Resources:

NCBI RefSeq record:
XM_011530919.2
NBCI Gene record:
RPS6KA6 (27330)

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 BRDN0001145731 GTGCAGATGATCCAAAGCAA pXPR_003 GGG 244 13% 8 0.9828 RPS6KA6 RPS6KA6 75533
2 BRDN0001147018 GCATCGCTTGCAAACAGAGT pXPR_003 AGG 1003 52% 16 0.6315 RPS6KA6 RPS6KA6 75535
3 BRDN0001147921 CCTGAAGTAGTAAATAGGAG pXPR_003 AGG 431 22% 10 0.2497 RPS6KA6 RPS6KA6 75536
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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 Human XM_011530919.2, 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 TRCN0000314958 CATCGTTGTCTGCTAAATTAC pLKO_005 2489 3UTR 100% 13.200 18.480 N RPS6KA6 n/a
2 TRCN0000196526 GAAGAGATACTGCTGCGTATA pLKO.1 2065 CDS 100% 10.800 15.120 N RPS6KA6 n/a
3 TRCN0000314885 GAAGAGATACTGCTGCGTATA pLKO_005 2065 CDS 100% 10.800 15.120 N RPS6KA6 n/a
4 TRCN0000196438 GAGAGTTACTTGACCGTATTC pLKO.1 1682 CDS 100% 10.800 15.120 N RPS6KA6 n/a
5 TRCN0000314884 GAGAGTTACTTGACCGTATTC pLKO_005 1682 CDS 100% 10.800 15.120 N RPS6KA6 n/a
6 TRCN0000380210 ACCATTCACAGGTCCACAATA pLKO_005 2564 3UTR 100% 13.200 10.560 N RPS6KA6 n/a
7 TRCN0000314887 TTTACCTTGTTACGGATTTAA pLKO_005 1652 CDS 100% 15.000 10.500 N RPS6KA6 n/a
8 TRCN0000002266 CTATGCAATGAAGGTGTTAAA pLKO.1 477 5UTR 100% 13.200 9.240 N RPS6KA6 n/a
9 TRCN0000002263 GCAGTAGTGTTCAAGTGTTTA pLKO.1 2601 3UTR 100% 13.200 9.240 N RPS6KA6 n/a
10 TRCN0000196549 GCTTGTGATATCTGGAGTTTA pLKO.1 1978 CDS 100% 13.200 9.240 N RPS6KA6 n/a
11 TRCN0000002265 TGGTGGAAACTGGGACAATAT pLKO.1 2109 CDS 100% 13.200 9.240 N RPS6KA6 n/a
12 TRCN0000314886 TGGTGGAAACTGGGACAATAT pLKO_005 2109 CDS 100% 13.200 9.240 N RPS6KA6 n/a
13 TRCN0000196585 GTCCACAATATTCATACTATG pLKO.1 2575 3UTR 100% 10.800 7.560 N RPS6KA6 n/a
14 TRCN0000196796 GCAGATTCAATCAGGATATGT pLKO.1 1846 CDS 100% 5.625 3.938 N RPS6KA6 n/a
15 TRCN0000002264 GAGTTGTTAAAGAAATCCCTA pLKO.1 323 5UTR 100% 2.640 1.848 N RPS6KA6 n/a
16 TRCN0000002262 GTATATGAATTGAAGGAGGAT pLKO.1 1447 CDS 100% 2.640 1.848 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_011530919.2, 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% 86.1% 86.1% V5 (not translated due to prior stop codon) 0_1ins309 n/a
2 ccsbBroadEn_15044 pDONR223 74.3% 77.6% 14.2% None (many diffs) n/a
3 ccsbBroad304_15044 pLX_304 0% 77.6% 14.2% V5 (not translated due to prior stop codon) (many diffs) n/a
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