Transcript: Human NM_001079882.1

Homo sapiens protein kinase D2 (PRKD2), transcript variant 4, mRNA.

Source:
NCBI, updated 2019-06-26
Taxon:
Homo sapiens (human)
Gene:
PRKD2 (25865)
Length:
2939
CDS:
551..2716

Additional Resources:

NCBI RefSeq record:
NM_001079882.1
NBCI Gene record:
PRKD2 (25865)

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 BRDN0001147099 GCAGTCATTAGGGACGCGGG pXPR_003 TGG 454 21% 5 0.1052 PRKD2 PRKD2 77614
2 BRDN0001145881 AATCGGTGCGACACACGACG pXPR_003 CGG 702 32% 7 -0.0064 PRKD2 PRKD2 77616
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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_001079882.1, 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 TRCN0000001949 CGTGGCAGTTAAGGTCATTGA pLKO.1 1807 CDS 100% 4.950 6.930 N PRKD2 n/a
2 TRCN0000342322 CGTGGCAGTTAAGGTCATTGA pLKO_005 1807 CDS 100% 4.950 6.930 N PRKD2 n/a
3 TRCN0000001950 CACGACCAACAGATACTATAA pLKO.1 1375 CDS 100% 13.200 9.240 N PRKD2 n/a
4 TRCN0000342248 CACGACCAACAGATACTATAA pLKO_005 1375 CDS 100% 13.200 9.240 N PRKD2 n/a
5 TRCN0000001948 CTTCTACGGCCTTTACGACAA pLKO.1 334 5UTR 100% 4.050 2.835 N PRKD2 n/a
6 TRCN0000352606 CTTCTACGGCCTTTACGACAA pLKO_005 334 5UTR 100% 4.050 2.835 N PRKD2 n/a
7 TRCN0000001947 CAGTTTGGAGTGGTCTATGGA pLKO.1 1760 CDS 100% 3.000 2.100 N PRKD2 n/a
8 TRCN0000010670 GTTGGGTGGTTCATTACAGCA pLKO.1 1284 CDS 100% 2.640 1.848 N PRKD2 n/a
9 TRCN0000342320 GTTGGGTGGTTCATTACAGCA pLKO_005 1284 CDS 100% 2.640 1.848 N PRKD2 n/a
10 TRCN0000199598 GCTCGCATCATCGGCGAGAAG pLKO.1 2174 CDS 100% 0.000 0.000 N PRKD2 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_001079882.1, 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 TRCN0000489002 TGTACTAACTGGCCAATTCCGCAC pLX_317 15.1% 82.1% 82.1% V5 (not translated due to prior stop codon) 0_1ins471 n/a
2 ccsbBroadEn_15028 pDONR223 59.1% 81.7% 12.4% None (many diffs) n/a
3 ccsbBroad304_15028 pLX_304 0% 81.7% 12.4% V5 (not translated due to prior stop codon) (many diffs) n/a
4 TRCN0000473412 CTACGTAAAGGCGACCATTCGTTG pLX_317 15% 81.7% 12.4% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000489157 CTATACTAGACCGTTATTCTAATG pLX_317 21.4% 74.6% 74.6% V5 (not translated due to prior stop codon) 1_549del n/a
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