Transcript: Human XM_017021462.1

PREDICTED: Homo sapiens protein kinase D1 (PRKD1), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PRKD1 (5587)
Length:
3069
CDS:
374..2617

Additional Resources:

NCBI RefSeq record:
XM_017021462.1
NBCI Gene record:
PRKD1 (5587)

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.

No results found.

shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_017021462.1, 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 TRCN0000194689 CAATTCACCTTGACAAGATTT pLKO.1 645 CDS 100% 13.200 18.480 N PRKD1 n/a
2 TRCN0000195127 CAATCCTCATTGTTTCGAAAT pLKO.1 1339 CDS 100% 10.800 15.120 N PRKD1 n/a
3 TRCN0000279832 CAATCCTCATTGTTTCGAAAT pLKO_005 1339 CDS 100% 10.800 15.120 N PRKD1 n/a
4 TRCN0000368784 CTTCGTAATGAGGTTGCAATT pLKO_005 1757 CDS 100% 10.800 15.120 N Prkd1 n/a
5 TRCN0000002127 CGGCACTATTGGAGATTGGAT pLKO.1 1199 CDS 100% 3.000 4.200 N PRKD1 n/a
6 TRCN0000195157 CTATCAGACCTGGTTAGATTT pLKO.1 2401 CDS 100% 13.200 10.560 N PRKD1 n/a
7 TRCN0000196650 GAAACACGAAACTTGTTATTG pLKO.1 2834 3UTR 100% 13.200 10.560 N PRKD1 n/a
8 TRCN0000195251 CAGGAAGAGATGTAGCTATTA pLKO.1 1692 CDS 100% 13.200 9.240 N PRKD1 n/a
9 TRCN0000002128 CCAGAGCACATAACGAAGTTT pLKO.1 1913 CDS 100% 5.625 3.938 N PRKD1 n/a
10 TRCN0000297260 CCAGAGCACATAACGAAGTTT pLKO_005 1913 CDS 100% 5.625 3.938 N PRKD1 n/a
11 TRCN0000002124 CCCACGCTCTCTTTGTTCATT pLKO.1 315 5UTR 100% 5.625 3.938 N PRKD1 n/a
12 TRCN0000297327 CCCACGCTCTCTTTGTTCATT pLKO_005 315 5UTR 100% 5.625 3.938 N PRKD1 n/a
13 TRCN0000002125 CTAAGGAACAAGGGCTACAAT pLKO.1 2141 CDS 100% 5.625 3.938 N PRKD1 n/a
14 TRCN0000279960 CTAAGGAACAAGGGCTACAAT pLKO_005 2141 CDS 100% 5.625 3.938 N PRKD1 n/a
15 TRCN0000002126 CCATCTCCTATAATCTGTCAA pLKO.1 2621 3UTR 100% 4.950 3.465 N PRKD1 n/a
16 TRCN0000220678 GAGTGTTTGTTGTTATGGAAA pLKO.1 1839 CDS 100% 4.950 3.465 N Prkd1 n/a
17 TRCN0000196872 GAGATATCTCTGTGAGTATTT pLKO.1 1551 CDS 100% 13.200 7.920 N PRKD1 n/a
18 TRCN0000279760 GAGATATCTCTGTGAGTATTT pLKO_005 1551 CDS 100% 13.200 7.920 N PRKD1 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 XM_017021462.1, 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_14794 pDONR223 53% 81.7% 5.4% None (many diffs) n/a
2 ccsbBroad304_14794 pLX_304 0% 81.7% 5.4% V5 (not translated due to prior stop codon) (many diffs) n/a
3 TRCN0000473066 AGCCCACTGGCGACGGCTTTAACC pLX_317 15.1% 81.7% 5.4% V5 (not translated due to prior stop codon) (many diffs) n/a
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