Transcript: Human NM_001363040.2

Homo sapiens PDZ binding kinase (PBK), transcript variant 3, mRNA.

Source:
NCBI, updated 2019-09-29
Taxon:
Homo sapiens (human)
Gene:
PBK (55872)
Length:
1778
CDS:
129..1097

Additional Resources:

NCBI RefSeq record:
NM_001363040.2
NBCI Gene record:
PBK (55872)

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 BRDN0001145450 AAGCTTCTGCATAAACGGAG pXPR_003 AGG 97 10% 3 0.5896 PBK PBK 75572
2 BRDN0001147308 TAAATGTGTACCTAATGAAA pXPR_003 AGG 147 15% 3 0.479 PBK PBK 75574
3 BRDN0001145489 CCACTGGATGAAAATATGAC pXPR_003 TGG 590 61% 6 0.1698 PBK PBK 75573
Download CSV

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

This list includes all shRNAs that have a perfect SDR[?] match to Human NM_001363040.2, 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 TRCN0000001807 GAATATGGCAAGAGGGTTAAA pLKO.1 572 CDS 100% 13.200 18.480 N PBK n/a
2 TRCN0000196883 GTAATGATCATTATCGAAGTG pLKO.1 337 CDS 100% 4.050 5.670 N PBK n/a
3 TRCN0000196313 GATTCCACACATTAATCTTTC pLKO.1 860 CDS 100% 10.800 8.640 N PBK n/a
4 TRCN0000219717 GAAGTGTGGCTTGCGTAAATA pLKO.1 1112 3UTR 100% 15.000 10.500 N PBK n/a
5 TRCN0000219716 GGGAACTAGGCCACCTATTAA pLKO.1 953 CDS 100% 15.000 10.500 N PBK n/a
6 TRCN0000001809 AGGACCATAGTTTCTTGTTAA pLKO.1 1201 3UTR 100% 13.200 9.240 N PBK n/a
7 TRCN0000001805 CTCTTCTCTGTATGCACTAAT pLKO.1 1014 CDS 100% 13.200 9.240 N PBK n/a
8 TRCN0000196720 GCCTTCATCATCCAAACATTG pLKO.1 400 CDS 100% 10.800 7.560 N PBK n/a
9 TRCN0000001806 CACCAAGCAAATTATCAGAAA pLKO.1 154 CDS 100% 4.950 3.465 N PBK n/a
10 TRCN0000001808 GTCTGTGTCTTGCTATGGAAT pLKO.1 457 CDS 100% 4.950 3.465 N PBK n/a
11 TRCN0000027603 GCTATGGAATATGGAGGTGAA pLKO.1 468 CDS 100% 4.050 2.835 N LOC279333 n/a
Download CSV

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_001363040.2, 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.

Download CSV

All ORF constructs matching this transcript

Clone ID DNA Barcode Vector Sequenced %[?] Nuc. Match %[?] Prot. Match %[?] Epitope Tag Match Diffs[?] Addgene[?]
1 ccsbBroadEn_08605 pDONR223 100% 99.8% 100% None 99G>A n/a
2 ccsbBroad304_08605 pLX_304 0% 99.8% 100% V5 99G>A n/a
3 TRCN0000479851 TGCGTGCACTAAATATATCAGCCG pLX_317 40.4% 99.8% 100% V5 99G>A n/a
4 ccsbBroadEn_15110 pDONR223 0% 99.8% 100% None 99G>A n/a
5 ccsbBroad304_15110 pLX_304 0% 99.8% 100% V5 99G>A n/a
6 TRCN0000480509 TCCCTGGCGTCGGGGTCAATTTTC pLX_317 37.7% 99.8% 100% V5 99G>A n/a
7 TRCN0000488975 TAATCCACATTTACTCCCAACTTA pLX_317 37.5% 99.7% 99.6% V5 (not translated due to prior stop codon) 320A>G;822G>C n/a
Download CSV