Transcript: Human XM_011525429.2

PREDICTED: Homo sapiens kinase suppressor of ras 1 (KSR1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
KSR1 (8844)
Length:
6003
CDS:
187..2958

Additional Resources:

NCBI RefSeq record:
XM_011525429.2
NBCI Gene record:
KSR1 (8844)

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 BRDN0001146869 GGATGCCTACCGGGTACCGT pXPR_003 CGG 1624 59% 13 0.1743 KSR1 KSR1 77858
2 BRDN0001146294 TGGGTTGGATGATGTCGGGA pXPR_003 AGG 1387 50% 10 -0.0284 KSR1 KSR1 77859
3 BRDN0001147076 GTTGGAGTTCATTGGATGCG pXPR_003 CGG 561 20% 4 -0.0603 KSR1 KSR1 77860
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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_011525429.2, 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 TRCN0000006230 GTGCCAGAAGAGCATGATATT pLKO.1 1272 CDS 100% 13.200 10.560 N KSR1 n/a
2 TRCN0000338414 GTGCCAGAAGAGCATGATATT pLKO_005 1272 CDS 100% 13.200 10.560 N KSR1 n/a
3 TRCN0000338476 TCGTACACAAAGATCTCAAAT pLKO_005 2372 CDS 100% 13.200 10.560 N KSR1 n/a
4 TRCN0000382498 ACGGCGTGAGAACCAGCTAAA pLKO_005 2475 CDS 100% 10.800 8.640 N KSR1 n/a
5 TRCN0000021535 CCTAGAGATAGGAACAGTCAT pLKO.1 4998 3UTR 100% 4.950 3.960 N LOC400588 n/a
6 TRCN0000006229 GCTGCCTACTTCATTCATCAT pLKO.1 1654 CDS 100% 4.950 3.960 N KSR1 n/a
7 TRCN0000338417 CCTTATTGCAGAAAGTTTAAA pLKO_005 1728 CDS 100% 15.000 10.500 N KSR1 n/a
8 TRCN0000021536 CTCGTGAGCATCACAGTTAAA pLKO.1 4924 3UTR 100% 13.200 9.240 N LOC400588 n/a
9 TRCN0000380689 TCATCATAGACAGCAGTTTAT pLKO_005 1668 CDS 100% 13.200 9.240 N KSR1 n/a
10 TRCN0000006226 GCCTCCTTATTGCAGAAAGTT pLKO.1 1724 CDS 100% 5.625 3.938 N KSR1 n/a
11 TRCN0000021534 CCTGTGTTATTCTGTGTTGAT pLKO.1 5641 3UTR 100% 4.950 3.465 N LOC400588 n/a
12 TRCN0000021538 GAAGCGCTCATTGAGCAACTA pLKO.1 4945 3UTR 100% 4.950 3.465 N LOC400588 n/a
13 TRCN0000021537 TGTATTTCAGTGACTGTGAAT pLKO.1 5203 3UTR 100% 4.950 3.465 N LOC400588 n/a
14 TRCN0000006227 GCTCTTCAAGAAAGAGGTGAT pLKO.1 2142 CDS 100% 0.405 0.284 N KSR1 n/a
15 TRCN0000338415 GCTCTTCAAGAAAGAGGTGAT pLKO_005 2142 CDS 100% 0.405 0.284 N KSR1 n/a
16 TRCN0000361300 AGACGTCTCTGGACATCAATA pLKO_005 2291 CDS 100% 13.200 18.480 N Ksr1 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_011525429.2, 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 ccsbBroadEn_14915 pDONR223 72.3% 81.5% 51% None (many diffs) n/a
2 ccsbBroad304_14915 pLX_304 0% 81.5% 51% V5 (not translated due to prior stop codon) (many diffs) n/a
3 TRCN0000481419 ATCCCTCTAAATTAGTAATAGAAA pLX_317 19.1% 81.5% 51% V5 (not translated due to prior stop codon) (many diffs) n/a
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