Transcript: Human NM_138316.4

Homo sapiens pantothenate kinase 1 (PANK1), transcript variant gamma, mRNA.

Source:
NCBI, updated 2019-09-30
Taxon:
Homo sapiens (human)
Gene:
PANK1 (53354)
Length:
6048
CDS:
193..1137

Additional Resources:

NCBI RefSeq record:
NM_138316.4
NBCI Gene record:
PANK1 (53354)

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 BRDN0001146287 ACAACTATAAAAGAGTTACA pXPR_003 GGG 624 66% 3 1.069 PANK1 PANK1 76557
2 BRDN0001147091 CCTATGTTGCTGGTTAACAT pXPR_003 GGG 566 60% 3 0.2365 PANK1 PANK1 76558
3 BRDN0001146939 GAAGGATATTACAGCCGAAG pXPR_003 AGG 106 11% 2 0.1702 PANK1 PANK1 76556
4 BRDN0001147859 CGGGGCTTTCAAATTCGAAG pXPR_003 AGG 364 39% 2 -0.7245 PANK1 PANK1 76559
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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_138316.4, 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 TRCN0000197214 GCGCGTTGAATGAGAACATAG pLKO.1 938 CDS 100% 10.800 15.120 N PANK1 n/a
2 TRCN0000197255 GCTATGCACAGGTTCATTCAG pLKO.1 463 CDS 100% 4.950 6.930 N PANK1 n/a
3 TRCN0000199686 GCCTGCTTTATGTCGACTCTG pLKO.1 626 CDS 100% 4.050 5.670 N PANK1 n/a
4 TRCN0000037561 GCCTTGATAACCCATACCCTA pLKO.1 725 CDS 100% 2.640 3.696 N PANK1 n/a
5 TRCN0000194665 CCTATGTTGCTGGTTAACATG pLKO.1 742 CDS 100% 0.495 0.693 N PANK1 n/a
6 TRCN0000037563 GCTGGCATATGCCATGGATTT pLKO.1 1014 CDS 100% 0.000 0.000 N PANK1 n/a
7 TRCN0000037560 CGCTGGTTAAATTGGTGTATT pLKO.1 254 CDS 100% 13.200 10.560 N PANK1 n/a
8 TRCN0000196696 GTTTGTCCTATCGCTTATAAA pLKO.1 1899 3UTR 100% 15.000 10.500 N PANK1 n/a
9 TRCN0000361881 TTTGGAACATGAGGGTTATTT pLKO_005 1065 CDS 100% 15.000 10.500 N Pank1 n/a
10 TRCN0000424569 AGTAATTACTCTAGGAGATTT pLKO_005 1516 3UTR 100% 13.200 9.240 N PANK1 n/a
11 TRCN0000428890 TGAAGAGCATCCGGAAGTATT pLKO_005 326 CDS 100% 13.200 9.240 N PANK1 n/a
12 TRCN0000037559 CCCTACCTGTAACCTTTCTTT pLKO.1 1730 3UTR 100% 5.625 3.938 N PANK1 n/a
13 TRCN0000037562 CCGAAGGATATTACAGCCGAA pLKO.1 280 CDS 100% 2.160 1.512 N PANK1 n/a
14 TRCN0000195062 CGGAAGTATTTGACTTCTAAT pLKO.1 337 CDS 100% 1.320 0.792 N PANK1 n/a
15 TRCN0000222574 CGCCTGTAATCCCAGCACTTT pLKO.1 3849 3UTR 100% 4.950 2.475 Y ERAP2 n/a
16 TRCN0000078113 GCCTGTAATCCCAGCACTTTA pLKO.1 3850 3UTR 100% 13.200 6.600 Y LIAS 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_138316.4, 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 ccsbBroadEn_12021 pDONR223 100% 42.1% 33.3% None (many diffs) n/a
2 ccsbBroad304_12021 pLX_304 0% 42.1% 33.3% V5 (many diffs) n/a
3 TRCN0000475014 CCGGATTTTAACCCTTCACTGAGC pLX_317 100% 42.1% 33.3% V5 (many diffs) n/a
4 TRCN0000487959 CGACCGATTATTCACTTTGCAAAA pLX_317 72% 42.1% 33.3% V5 (not translated due to prior stop codon) (many diffs) n/a
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