Transcript: Human XM_011525027.3

PREDICTED: Homo sapiens mitogen-activated protein kinase kinase 6 (MAP2K6), transcript variant X4, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
MAP2K6 (5608)
Length:
13118
CDS:
181..1017

Additional Resources:

NCBI RefSeq record:
XM_011525027.3
NBCI Gene record:
MAP2K6 (5608)

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 BRDN0001147036 TAAAGGCCAGACAATTCCAG pXPR_003 AGG 283 34% 6 0.5346 MAP2K6 MAP2K6 76041
2 BRDN0001145878 TTATGGCGCACTGTTTCGGG pXPR_003 AGG 193 23% 5 0.4112 MAP2K6 MAP2K6 76039
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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_011525027.3, 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 TRCN0000196746 GCTACGGTAGTGATGAAATTA pLKO.1 1349 3UTR 100% 15.000 21.000 N MAP2K6 n/a
2 TRCN0000320696 GGCCTTGGAATCTATAGTATA pLKO_005 1179 3UTR 100% 13.200 18.480 N MAP2K6 n/a
3 TRCN0000382304 GAGTTGGCCATCCTTCGATTT pLKO_005 757 CDS 100% 10.800 15.120 N MAP2K6 n/a
4 TRCN0000009987 GGCCTACATACCCAGAGCTAA pLKO.1 917 CDS 100% 4.950 6.930 N MAP2K6 n/a
5 TRCN0000009990 CGGCTACTGATGGATTTGGAT pLKO.1 295 CDS 100% 3.000 4.200 N MAP2K6 n/a
6 TRCN0000380833 GGATCCGAGCCACAGTAAATA pLKO_005 260 CDS 100% 15.000 12.000 N MAP2K6 n/a
7 TRCN0000320792 ACTGATGGATTTGGATATTTC pLKO_005 300 CDS 100% 13.200 10.560 N MAP2K6 n/a
8 TRCN0000320697 GATGACCTGGAGCCTATAATG pLKO_005 163 5UTR 100% 13.200 10.560 N MAP2K6 n/a
9 TRCN0000320770 GAGCTAATGCAACATCCATTT pLKO_005 931 CDS 100% 10.800 8.640 N MAP2K6 n/a
10 TRCN0000009989 CCGAGCCACAGTAAATAGCCA pLKO.1 264 CDS 100% 0.750 0.600 N MAP2K6 n/a
11 TRCN0000009991 CAATGCTCTCGGTCAAGTGAA pLKO.1 573 CDS 100% 4.950 3.465 N MAP2K6 n/a
12 TRCN0000350353 CAATGCTCTCGGTCAAGTGAA pLKO_005 573 CDS 100% 4.950 3.465 N MAP2K6 n/a
13 TRCN0000009988 CCTATAATGGAACTGGGACGA pLKO.1 175 5UTR 100% 2.160 1.512 N MAP2K6 n/a
14 TRCN0000195654 CTCCATTTCAGCAGCTCAAAC pLKO.1 797 CDS 100% 10.800 6.480 N MAP2K6 n/a
15 TRCN0000222574 CGCCTGTAATCCCAGCACTTT pLKO.1 5022 3UTR 100% 4.950 2.475 Y ERAP2 n/a
16 TRCN0000078113 GCCTGTAATCCCAGCACTTTA pLKO.1 5023 3UTR 100% 13.200 6.600 Y LIAS n/a
17 TRCN0000256748 GGCAGGAGAATTGCTTGAATC pLKO_005 5187 3UTR 100% 10.800 5.400 Y SMIM11A 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_011525027.3, 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 ccsbBroadEn_01291 pDONR223 100% 83.2% 83.2% None 0_1ins168 n/a
2 ccsbBroad304_01291 pLX_304 0% 83.2% 83.2% V5 0_1ins168 n/a
3 TRCN0000472398 TATATCCATGATGTCTATAAATAT pLX_317 37.8% 83.2% 83.2% V5 0_1ins168 n/a
4 ccsbBroadEn_14810 pDONR223 0% 83.2% 83.2% None 0_1ins168 n/a
5 ccsbBroad304_14810 pLX_304 0% 83.2% 83.2% V5 0_1ins168 n/a
6 TRCN0000467778 GAACAGTGCGAGCGACACCTGAGA pLX_317 34.2% 83.2% 83.2% V5 0_1ins168 n/a
7 TRCN0000492175 CACTGTTGATGCCTACAGTTGAGT pLX_317 34.2% 82.9% 82.9% V5 (not translated due to prior stop codon) 0_1ins168;834_835insTTG n/a
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