Transcript: Human NM_001282547.2

Homo sapiens serine/threonine kinase 40 (STK40), transcript variant 2, mRNA.

Source:
NCBI, updated 2019-08-09
Taxon:
Homo sapiens (human)
Gene:
STK40 (83931)
Length:
3645
CDS:
211..1518

Additional Resources:

NCBI RefSeq record:
NM_001282547.2
NBCI Gene record:
STK40 (83931)

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 BRDN0001147746 ACACGTACCGCTGAGCACGT pXPR_003 CGG 730 56% 7 0.6388 STK40 STK40 75626
2 BRDN0001149509 CGCTGAAGTCATGAGCACAG pXPR_003 AGG 434 33% 5 0.3523 STK40 STK40 75628
3 BRDN0001149285 TGTGGTAATCTTCTACGACG pXPR_003 TGG 538 41% 5 0.3372 STK40 STK40 75627
4 BRDN0001147563 CCGCACCTGTGAAATCGTTG pXPR_003 AGG 361 28% 5 -0.7021 STK40 STK40 75625
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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_001282547.2, 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 TRCN0000195397 CAAGAGGACACATCGGATAAC pLKO.1 828 CDS 100% 10.800 8.640 N STK40 n/a
2 TRCN0000195360 CAGTGCCCTTGCCTCATAATA pLKO.1 2500 3UTR 100% 15.000 10.500 N STK40 n/a
3 TRCN0000195652 CCAAATGAGCAATGCGGATAG pLKO.1 1269 CDS 100% 6.000 4.200 N STK40 n/a
4 TRCN0000195562 CAAAGAGAGCTGGACCATTCA pLKO.1 296 CDS 100% 4.950 3.465 N STK40 n/a
5 TRCN0000001816 CCGGATGGTTAAGAAGATGAA pLKO.1 591 CDS 100% 4.950 3.465 N STK40 n/a
6 TRCN0000194815 CCTAGATAACTAATCTGCTTT pLKO.1 1738 3UTR 100% 4.950 3.465 N STK40 n/a
7 TRCN0000001815 CCTATTGTAAAGAAACGGAAA pLKO.1 3536 3UTR 100% 4.050 2.835 N STK40 n/a
8 TRCN0000001819 GCACTACGTCATCAAGGAGAA pLKO.1 690 CDS 100% 4.050 2.835 N STK40 n/a
9 TRCN0000199941 GCAGGAGCTCTTCCGCAAGAT pLKO.1 1047 CDS 100% 1.650 1.155 N STK40 n/a
10 TRCN0000001817 GCGAGGAAAGATGGCACGGAT pLKO.1 370 CDS 100% 0.880 0.616 N STK40 n/a
11 TRCN0000001818 GAAATCGTTGAGGACACAGAA pLKO.1 565 CDS 100% 4.950 2.970 N STK40 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_001282547.2, 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_04308 pDONR223 100% 100% 100% None n/a
2 ccsbBroad304_04308 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000480740 TCTGCGAACATCTCTTTCGATATC pLX_317 29.9% 100% 100% V5 n/a
4 ccsbBroadEn_15186 pDONR223 0% 100% 100% None n/a
5 ccsbBroad304_15186 pLX_304 0% 100% 100% V5 n/a
6 TRCN0000480161 TCCCTGTCGTGTCATCGCCACGTA pLX_317 23.9% 100% 100% V5 n/a
7 TRCN0000491586 AAAAACGGGAGTGAGAGGCTGGTA pLX_317 31.9% 99.9% 100% V5 (not translated due to prior stop codon) 1212C>T n/a
8 TRCN0000489086 CTGCCGTGATAGCGGAGACATAAC pLX_317 26.2% 99.8% 99.7% V5 1212C>T;1305_1306insG n/a
9 ccsbBroadEn_12762 pDONR223 100% 53.4% 53.3% None 1_606del;1183G>A n/a
10 ccsbBroad304_12762 pLX_304 0% 53.4% 53.3% V5 1_606del;1183G>A n/a
11 TRCN0000478606 GCTGACTAAATAAGGCGCGCCACG pLX_317 41% 53.4% 53.3% V5 1_606del;1183G>A n/a
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