Transcript: Human NM_005400.3

Homo sapiens protein kinase C epsilon (PRKCE), mRNA.

Source:
NCBI, updated 2019-07-21
Taxon:
Homo sapiens (human)
Gene:
PRKCE (5581)
Length:
5749
CDS:
427..2640

Additional Resources:

NCBI RefSeq record:
NM_005400.3
NBCI Gene record:
PRKCE (5581)

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 BRDN0001148049 ATGTGATCATCGATCTCTCA pXPR_003 GGG 393 18% 2 0.1429 PRKCE PRKCE 76791
2 BRDN0001148861 CCACGTTGGTCTCACATCGA pXPR_003 CGG 848 38% 7 -0.0601 PRKCE PRKCE 76789
3 BRDN0001149211 GCCTTGTCATTTGACAACCG pXPR_003 AGG 1112 50% 9 -0.4368 PRKCE PRKCE 76790
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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_005400.3, 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 TRCN0000000845 CCCTTCAAACCACGCATTAAA pLKO.1 2476 CDS 100% 15.000 21.000 N PRKCE n/a
2 TRCN0000000846 CCACAAGTTCGGTATCCACAA pLKO.1 1152 CDS 100% 4.050 5.670 N PRKCE n/a
3 TRCN0000219726 CTGCATGTTCAGGCATATTAT pLKO.1 4206 3UTR 100% 15.000 10.500 N PRKCE n/a
4 TRCN0000219725 ATATGCTGTGAAGGTCTTAAA pLKO.1 1725 CDS 100% 13.200 9.240 N PRKCE n/a
5 TRCN0000195163 CATCCTAAGTTCCTAGCATAA pLKO.1 3606 3UTR 100% 10.800 7.560 N PRKCE n/a
6 TRCN0000000844 GCAGAACTCAAGGGCAAAGAT pLKO.1 1699 CDS 100% 5.625 3.938 N PRKCE n/a
7 TRCN0000197016 GCCTGGATGAGTTCAACTTCA pLKO.1 1637 CDS 100% 4.950 3.465 N PRKCE n/a
8 TRCN0000000847 TGTCATAGGAAAGCAGGGATA pLKO.1 1002 CDS 100% 4.050 2.835 N PRKCE n/a
9 TRCN0000195553 CGACCTATTTGAGTCCATCCT pLKO.1 2265 CDS 100% 2.640 1.848 N PRKCE n/a
10 TRCN0000000848 GCCAGAAGGAAGAGTGTATGT pLKO.1 786 CDS 100% 4.950 2.970 N PRKCE 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_005400.3, 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_01283 pDONR223 100% 100% 100% None n/a
2 ccsbBroad304_01283 pLX_304 27.1% 100% 100% V5 n/a
3 TRCN0000465452 ACTCTCTGTTATTACCTATAAACG pLX_317 16.2% 100% 100% V5 n/a
4 TRCN0000488864 CGGTCTTCAACTTCCCTTTTGGCA pLX_317 16.3% 100% 100% V5 (not translated due to prior stop codon) n/a
5 TRCN0000489143 GCAGAAAACAATTTGCACCACATC pLX_317 16.3% 100% 100% V5 (not translated due to prior stop codon) n/a
6 TRCN0000488382 TGAAGTTGTTGTTCGTTGGTGCGC pLX_317 14.9% 99.9% 99.8% V5 2211_2212insG n/a
7 TRCN0000488914 TCCGATTCCCGCTAGAGTGGAAAG pLX_317 14.9% 99.9% 99.8% V5 2211_2212insG n/a
8 ccsbBroad304_14790 pLX_304 30.6% 99.5% 72.4% V5 (not translated due to prior stop codon) (many diffs) n/a
9 ccsbBroadEn_14790 pDONR223 64.8% 99.4% 69.9% None (many diffs) n/a
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