Transcript: Human XM_017007456.1

PREDICTED: Homo sapiens mitogen-activated protein kinase kinase kinase 13 (MAP3K13), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
MAP3K13 (9175)
Length:
9841
CDS:
303..3203

Additional Resources:

NCBI RefSeq record:
XM_017007456.1
NBCI Gene record:
MAP3K13 (9175)

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 BRDN0001148292 GATGGATGATAGGACGAACA pXPR_003 GGG 1559 54% 11 0.7964 MAP3K13 MAP3K13 76906
2 BRDN0001145899 AAATCCTTATGAAACAGACG pXPR_003 TGG 1164 40% 7 0.3501 MAP3K13 MAP3K13 76905
3 BRDN0001145716 AGTGTTGACGAGCGTAAGTG pXPR_003 AGG 217 7% 3 -0.1407 MAP3K13 MAP3K13 76904
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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_017007456.1, 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 TRCN0000381526 AGTATCCTGGGACCTACAAAC pLKO_005 1831 CDS 100% 10.800 15.120 N MAP3K13 n/a
2 TRCN0000194716 CTCGTGACTATACTGGCATTT pLKO.1 3228 3UTR 100% 10.800 15.120 N MAP3K13 n/a
3 TRCN0000007104 CGTCCTATCATCCATCCCAAT pLKO.1 1863 CDS 100% 4.050 5.670 N MAP3K13 n/a
4 TRCN0000007103 GCACCCTAACATCATCGCATT pLKO.1 938 CDS 100% 4.050 5.670 N MAP3K13 n/a
5 TRCN0000194717 CAAGCGGAACTGAAGACATAA pLKO.1 631 CDS 100% 13.200 10.560 N MAP3K13 n/a
6 TRCN0000218449 CGTGATCTCAAATCACCTAAT pLKO_005 1134 CDS 100% 1.080 0.864 N MAP3K13 n/a
7 TRCN0000218572 CAGAGATTCCCATTGACATAT pLKO_005 2980 CDS 100% 13.200 9.240 N MAP3K13 n/a
8 TRCN0000007102 CCTGAAGATCTCGTGACTATA pLKO.1 3219 3UTR 100% 13.200 9.240 N MAP3K13 n/a
9 TRCN0000194715 CCTGATGAGTTAGCTGATAAA pLKO.1 2910 CDS 100% 13.200 9.240 N MAP3K13 n/a
10 TRCN0000196344 GAAGGCATATTCCACTGATTA pLKO.1 740 CDS 100% 13.200 9.240 N MAP3K13 n/a
11 TRCN0000257402 GCGGGAGAAGGAGCTCATTAA pLKO_005 1787 CDS 100% 13.200 9.240 N MAP3K13 n/a
12 TRCN0000226452 TCAGGCATGCGCTGGATATTC pLKO_005 1687 CDS 100% 13.200 9.240 N MAP3K13 n/a
13 TRCN0000196257 GCCAGTCATATTCAACCTTTA pLKO.1 2827 CDS 100% 10.800 7.560 N MAP3K13 n/a
14 TRCN0000197262 GCTAAGGGAACACGATGAATC pLKO.1 560 CDS 100% 10.800 7.560 N MAP3K13 n/a
15 TRCN0000380130 TGTTGCCAGGCTGACGCTTAT pLKO_005 2469 CDS 100% 10.800 7.560 N MAP3K13 n/a
16 TRCN0000007106 CCAGAACAGTATGGGTCCTTA pLKO.1 2511 CDS 100% 4.950 3.465 N MAP3K13 n/a
17 TRCN0000007105 CCCACAAGAAACTTACTTCAA pLKO.1 1553 CDS 100% 4.950 3.465 N MAP3K13 n/a
18 TRCN0000226453 CAAGAATGGCAGGGATCTATT pLKO_005 3425 3UTR 100% 13.200 7.920 N MAP3K13 n/a
19 TRCN0000164801 CCTCCCAAAGTACTGGGATTA pLKO.1 8167 3UTR 100% 1.080 0.540 Y MAPKAPK5-AS1 n/a
20 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 4716 3UTR 100% 5.625 2.813 Y KLHL30 n/a
21 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 4716 3UTR 100% 5.625 2.813 Y EID2B 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_017007456.1, 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.

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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 TRCN0000488326 AGTCAGCTAACGTAAGTCCACAGC pLX_317 11.8% 100% 100% V5 (not translated due to prior stop codon) n/a
2 TRCN0000489794 TGTAGGTGAACCTTGAATTACATG pLX_317 6.6% 99.9% 99.8% V5 2898_2899insG n/a
3 ccsbBroadEn_11344 pDONR223 100% 67.9% 67.9% None 1_930del n/a
4 ccsbBroad304_11344 pLX_304 0% 67.9% 67.9% V5 1_930del n/a
5 TRCN0000480578 CCAATCTTAGACGCTTGGCGGGGT pLX_317 21.2% 67.9% 67.9% V5 1_930del n/a
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