Transcript: Human XM_005273317.4

PREDICTED: Homo sapiens CDC42 binding protein kinase alpha (CDC42BPA), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CDC42BPA (8476)
Length:
10870
CDS:
969..6467

Additional Resources:

NCBI RefSeq record:
XM_005273317.4
NBCI Gene record:
CDC42BPA (8476)

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 BRDN0001145566 AAAACTGTAGGAACTAGTCC pXPR_003 AGG 1654 30% 13 0.623 CDC42BPA CDC42BPA 75746
2 BRDN0001147767 CAACATAATAATCCATAACC pXPR_003 AGG 458 8% 5 0.5553 CDC42BPA CDC42BPA 75748
3 BRDN0001146626 TTCTGAGGATCTATACCCAG pXPR_003 GGG 3333 61% 26 0.056 CDC42BPA CDC42BPA 75747
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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 XM_005273317.4, 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 TRCN0000195596 CCAGGCTAGTGAGCGATTAAA pLKO.1 2624 CDS 100% 15.000 21.000 N CDC42BPA n/a
2 TRCN0000194939 CAGAATCATTTCACCAGTTAA pLKO.1 7945 3UTR 100% 13.200 18.480 N CDC42BPA n/a
3 TRCN0000195557 CCGATGCTCTGGATCAATTTG pLKO.1 3850 CDS 100% 13.200 18.480 N CDC42BPA n/a
4 TRCN0000194832 CGGAAAGATATACCCTGTATA pLKO.1 4548 CDS 100% 13.200 18.480 N CDC42BPA n/a
5 TRCN0000000662 GCAAGAGATAACCAAACTAAA pLKO.1 3017 CDS 100% 13.200 18.480 N CDC42BPA n/a
6 TRCN0000001333 GCAAGAGATAACCAAACTAAA pLKO.1 3017 CDS 100% 13.200 18.480 N CDC42BPA n/a
7 TRCN0000022979 CCAGGATGACAATAACTTATA pLKO.1 1400 CDS 100% 13.200 10.560 N LOC381309 n/a
8 TRCN0000196514 GTGGAATTGATTGGGATAATA pLKO.1 1999 CDS 100% 15.000 10.500 N CDC42BPA n/a
9 TRCN0000194982 CAGTTAGAAGAAGAGGTTAAA pLKO.1 3363 CDS 100% 13.200 9.240 N CDC42BPA n/a
10 TRCN0000000659 CCGCAGATAAATGTAGAAATA pLKO.1 7430 3UTR 100% 13.200 9.240 N CDC42BPA n/a
11 TRCN0000001330 CCGCAGATAAATGTAGAAATA pLKO.1 7430 3UTR 100% 13.200 9.240 N CDC42BPA n/a
12 TRCN0000196639 GCAGAATCAGAAGGATCTATT pLKO.1 7920 3UTR 100% 13.200 9.240 N CDC42BPA n/a
13 TRCN0000196893 GTTGTTACAATGCACCATATC pLKO.1 5446 CDS 100% 10.800 7.560 N CDC42BPA n/a
14 TRCN0000000660 GCGATTACATAGAGAAGACTT pLKO.1 1178 CDS 100% 4.950 3.465 N CDC42BPA n/a
15 TRCN0000001331 GCGATTACATAGAGAAGACTT pLKO.1 1178 CDS 100% 4.950 3.465 N CDC42BPA n/a
16 TRCN0000000663 GCTCAGTCAGTATTCCATCTA pLKO.1 6097 CDS 100% 4.950 3.465 N CDC42BPA n/a
17 TRCN0000001334 GCTCAGTCAGTATTCCATCTA pLKO.1 6097 CDS 100% 4.950 3.465 N CDC42BPA n/a
18 TRCN0000000661 CGCTCAGTCTATGTTCCCAAA pLKO.1 4713 CDS 100% 4.050 2.835 N CDC42BPA n/a
19 TRCN0000001332 CGCTCAGTCTATGTTCCCAAA pLKO.1 4713 CDS 100% 4.050 2.835 N CDC42BPA n/a
20 TRCN0000199935 GCTCGCCATGTCCGAGATAAG pLKO.1 2757 CDS 100% 3.600 2.520 N CDC42BPA 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_005273317.4, 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

No results found.