Transcript: Human NM_025144.4

Homo sapiens alpha kinase 1 (ALPK1), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-08-07
Taxon:
Homo sapiens (human)
Gene:
ALPK1 (80216)
Length:
5399
CDS:
254..3988

Additional Resources:

NCBI RefSeq record:
NM_025144.4
NBCI Gene record:
ALPK1 (80216)

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 BRDN0001146035 AGTGCACAGAAGGCTCCATG pXPR_003 GGG 1105 30% 11 0.9124 ALPK1 ALPK1 76081
2 BRDN0001146195 GAGCCATCGGACTACAGCAA pXPR_003 TGG 1688 45% 11 0.6027 ALPK1 ALPK1 76082
3 BRDN0001146875 TGCCAGTATACCTAGCGACG pXPR_003 TGG 712 19% 9 0.416 ALPK1 ALPK1 76084
4 BRDN0001145294 CATCCTCGCTCGGGACTGTG pXPR_003 CGG 310 8% 5 0.2592 ALPK1 ALPK1 76083
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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_025144.4, 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 TRCN0000358258 GGCCTCCATTGTAGGATATTT pLKO_005 907 CDS 100% 15.000 21.000 N ALPK1 n/a
2 TRCN0000021475 CCCAGGAAACTATTGTCTATT pLKO.1 3333 CDS 100% 13.200 9.240 N ALPK1 n/a
3 TRCN0000368514 TTCGAGTGCAGGTTGGATAAA pLKO_005 1562 CDS 100% 13.200 9.240 N ALPK1 n/a
4 TRCN0000195267 CAAGAGGAATTGATCAGTATC pLKO.1 4056 3UTR 100% 10.800 7.560 N ALPK1 n/a
5 TRCN0000021478 CCATCCACAATACTACTGATT pLKO.1 3587 CDS 100% 4.950 3.465 N ALPK1 n/a
6 TRCN0000196495 GCCAATGATTTGCAAGAGGAA pLKO.1 4044 3UTR 100% 2.640 1.848 N ALPK1 n/a
7 TRCN0000021477 GCCCAGGTGAAGGAACATTTA pLKO.1 1490 CDS 100% 13.200 7.920 N ALPK1 n/a
8 TRCN0000021474 GCATGTGTTGTTTAAGCCATT pLKO.1 4254 3UTR 100% 4.050 2.430 N ALPK1 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_025144.4, 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 TRCN0000491585 GTTTGTAATAGCTAGATAGAACCT pLX_317 9% 100% 100% V5 (not translated due to prior stop codon) n/a
2 TRCN0000491666 ACGCCATGAGATTTACAGCCTAGG pLX_317 11.4% 99.9% 99.9% V5 318T>C;3732_3733insG n/a
3 ccsbBroadEn_12685 pDONR223 100% 87.2% 83.9% None 3124delA;3257_3732del n/a
4 ccsbBroad304_12685 pLX_304 0% 87.2% 83.9% V5 3124delA;3257_3732del n/a
5 TRCN0000475108 ATACCTCAAAACCATGTCACAAAA pLX_317 13.4% 87.2% 83.9% V5 3124delA;3257_3732del n/a
6 ccsbBroadEn_15166 pDONR223 0% 87.2% 83.9% None 3124delA;3257_3732del n/a
7 ccsbBroad304_15166 pLX_304 0% 87.2% 83.9% V5 3124delA;3257_3732del n/a
8 TRCN0000473886 GCGGCGGGACCCGACATCCATACG pLX_317 10.2% 87.2% 83.9% V5 3124delA;3257_3732del n/a
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