Transcript: Human XM_006711002.3

PREDICTED: Homo sapiens MAPK interacting serine/threonine kinase 1 (MKNK1), transcript variant X6, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
MKNK1 (8569)
Length:
2536
CDS:
112..1368

Additional Resources:

NCBI RefSeq record:
XM_006711002.3
NBCI Gene record:
MKNK1 (8569)

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 BRDN0001146937 TCGGAGTAGGGTGTTTCGAG pXPR_003 AGG 259 21% 5 0.2663 MKNK1 MKNK1 75513
2 BRDN0001146808 CCATCGCAGATGGTGACAGG pXPR_003 AGG 57 5% 3 -0.1109 MKNK1 MKNK1 75512
3 BRDN0001148208 GGCACCTTGAACTTTGGCAT pXPR_003 AGG 163 13% 4 -0.1623 MKNK1 MKNK1 75514
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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_006711002.3, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000195343 CCTATGCCAAAGTTCAAGGTG pLKO.1 269 CDS 100% 2.640 3.696 N MKNK1 n/a
2 TRCN0000314803 CCTATGCCAAAGTTCAAGGTG pLKO_005 269 CDS 100% 2.640 3.696 N MKNK1 n/a
3 TRCN0000006234 GCCAGGAAAGTTTGAAGATAT pLKO.1 213 CDS 100% 13.200 9.240 N MKNK1 n/a
4 TRCN0000314869 TGCTCCAGTCACACCTTATAG pLKO_005 1371 3UTR 100% 13.200 9.240 N MKNK1 n/a
5 TRCN0000314870 ACTTGGGCAGTGGGATGAAAC pLKO_005 671 CDS 100% 10.800 7.560 N MKNK1 n/a
6 TRCN0000006231 CCAGCAAAGATGATACCTTAA pLKO.1 2081 3UTR 100% 10.800 7.560 N MKNK1 n/a
7 TRCN0000195111 CTGAAATGTATCCCTCGTTTA pLKO.1 1976 3UTR 100% 10.800 7.560 N MKNK1 n/a
8 TRCN0000197278 GCTGCTAAAGTCAGTAGTATC pLKO.1 2018 3UTR 100% 10.800 7.560 N MKNK1 n/a
9 TRCN0000006233 CAGCACGAAGAGAACGAACTA pLKO.1 1210 CDS 100% 4.950 3.465 N MKNK1 n/a
10 TRCN0000195356 CATCTCCAGTGAAGCCAAAGA pLKO.1 996 CDS 100% 4.950 3.465 N MKNK1 n/a
11 TRCN0000199013 CAGGCCACATTCTACGACAAG pLKO.1 790 CDS 100% 4.050 2.835 N MKNK1 n/a
12 TRCN0000197219 GCAGTTAGATAGTGCTCTGTG pLKO.1 2295 3UTR 100% 4.050 2.835 N MKNK1 n/a
13 TRCN0000006232 GCTGTATCAGTGTCAGGGAAA pLKO.1 384 CDS 100% 4.050 2.835 N MKNK1 n/a
14 TRCN0000195229 CTTGCTCTTCTTTCTAGAATG pLKO.1 2144 3UTR 100% 10.800 6.480 N MKNK1 n/a
15 TRCN0000314868 GCATCCAGGAAGGCAAGTATG pLKO_005 950 CDS 100% 10.800 6.480 N MKNK1 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_006711002.3, 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 TRCN0000488574 GAGAACACTACTATTCATTTGGTT pLX_317 22.3% 98.3% 97.4% V5 (not translated due to prior stop codon) (many diffs) n/a
2 TRCN0000487784 CACAGGGCATCCGCATTTATCAGC pLX_317 24.2% 92.6% 77.1% V5 (not translated due to prior stop codon) (many diffs) n/a
3 ccsbBroad304_14905 pLX_304 42.9% 88.9% 37.8% V5 (not translated due to prior stop codon) (many diffs) n/a
4 ccsbBroadEn_14905 pDONR223 100% 88.8% 37.8% None (many diffs) n/a
5 TRCN0000474479 AATATATGGTTTCTGATGTGGAAT pLX_317 29.1% 88.8% 37.8% V5 (not translated due to prior stop codon) (many diffs) n/a
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