Transcript: Human NM_001242317.2

Homo sapiens mitogen-activated protein kinase kinase kinase 13 (MAP3K13), transcript variant 3, mRNA.

Source:
NCBI, updated 2019-08-07
Taxon:
Homo sapiens (human)
Gene:
MAP3K13 (9175)
Length:
9074
CDS:
157..2436

Additional Resources:

NCBI RefSeq record:
NM_001242317.2
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 938 41% 9 0.8045 MAP3K13 MAP3K13 76906
2 BRDN0001145899 AAATCCTTATGAAACAGACG pXPR_003 TGG 543 24% 5 0.3674 MAP3K13 MAP3K13 76905
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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 NM_001242317.2, 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 TRCN0000381526 AGTATCCTGGGACCTACAAAC pLKO_005 1064 CDS 100% 10.800 15.120 N MAP3K13 n/a
2 TRCN0000194716 CTCGTGACTATACTGGCATTT pLKO.1 2461 3UTR 100% 10.800 15.120 N MAP3K13 n/a
3 TRCN0000007104 CGTCCTATCATCCATCCCAAT pLKO.1 1096 CDS 100% 4.050 5.670 N MAP3K13 n/a
4 TRCN0000218449 CGTGATCTCAAATCACCTAAT pLKO_005 367 CDS 100% 1.080 0.864 N MAP3K13 n/a
5 TRCN0000218572 CAGAGATTCCCATTGACATAT pLKO_005 2213 CDS 100% 13.200 9.240 N MAP3K13 n/a
6 TRCN0000007102 CCTGAAGATCTCGTGACTATA pLKO.1 2452 3UTR 100% 13.200 9.240 N MAP3K13 n/a
7 TRCN0000194715 CCTGATGAGTTAGCTGATAAA pLKO.1 2143 CDS 100% 13.200 9.240 N MAP3K13 n/a
8 TRCN0000257402 GCGGGAGAAGGAGCTCATTAA pLKO_005 1020 CDS 100% 13.200 9.240 N MAP3K13 n/a
9 TRCN0000226452 TCAGGCATGCGCTGGATATTC pLKO_005 920 CDS 100% 13.200 9.240 N MAP3K13 n/a
10 TRCN0000196257 GCCAGTCATATTCAACCTTTA pLKO.1 2060 CDS 100% 10.800 7.560 N MAP3K13 n/a
11 TRCN0000380130 TGTTGCCAGGCTGACGCTTAT pLKO_005 1702 CDS 100% 10.800 7.560 N MAP3K13 n/a
12 TRCN0000007106 CCAGAACAGTATGGGTCCTTA pLKO.1 1744 CDS 100% 4.950 3.465 N MAP3K13 n/a
13 TRCN0000007105 CCCACAAGAAACTTACTTCAA pLKO.1 786 CDS 100% 4.950 3.465 N MAP3K13 n/a
14 TRCN0000226453 CAAGAATGGCAGGGATCTATT pLKO_005 2658 3UTR 100% 13.200 7.920 N MAP3K13 n/a
15 TRCN0000164801 CCTCCCAAAGTACTGGGATTA pLKO.1 7400 3UTR 100% 1.080 0.540 Y MAPKAPK5-AS1 n/a
16 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 3949 3UTR 100% 5.625 2.813 Y KLHL30 n/a
17 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 3949 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 NM_001242317.2, 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_11344 pDONR223 100% 86.4% 86.4% None 1_309del n/a
2 ccsbBroad304_11344 pLX_304 0% 86.4% 86.4% V5 1_309del n/a
3 TRCN0000480578 CCAATCTTAGACGCTTGGCGGGGT pLX_317 21.2% 86.4% 86.4% V5 1_309del n/a
4 TRCN0000488326 AGTCAGCTAACGTAAGTCCACAGC pLX_317 11.8% 77.7% 77.2% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000489794 TGTAGGTGAACCTTGAATTACATG pLX_317 6.6% 77.7% 77.1% V5 (many diffs) n/a
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