Transcript: Human NM_018898.3

Homo sapiens protocadherin alpha subfamily C, 1 (PCDHAC1), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-08-04
Taxon:
Homo sapiens (human)
Gene:
PCDHAC1 (56135)
Length:
5475
CDS:
177..3068

Additional Resources:

NCBI RefSeq record:
NM_018898.3
NBCI Gene record:
PCDHAC1 (56135)

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 NM_018898.3, 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 TRCN0000416988 GAATGACAATTATCCGGTTAT pLKO_005 1820 CDS 100% 10.800 15.120 N PCDHAC1 n/a
2 TRCN0000413461 TGTATTTGAGCGCTCCGTATA pLKO_005 869 CDS 100% 10.800 15.120 N PCDHAC1 n/a
3 TRCN0000055597 CGCGGAACTTTCGCTTCCTTT pLKO.1 331 CDS 100% 4.950 6.930 N PCDHAC1 n/a
4 TRCN0000431200 GTAATTGCCTTGGCTTGTATT pLKO_005 2229 CDS 100% 13.200 10.560 N PCDHAC1 n/a
5 TRCN0000055596 CGTCTGACTCTAGTCTCTTTA pLKO.1 1984 CDS 100% 13.200 9.240 N PCDHAC1 n/a
6 TRCN0000174107 CGTCTGACTCTAGTCTCTTTA pLKO.1 1984 CDS 100% 13.200 9.240 N PCDHAC1 n/a
7 TRCN0000055593 GCACAGTGATTGCTCTCTTTA pLKO.1 1243 CDS 100% 13.200 9.240 N PCDHAC1 n/a
8 TRCN0000055594 CCTCAGTTACTTCCAGACTTT pLKO.1 2157 CDS 100% 4.950 3.465 N PCDHAC1 n/a
9 TRCN0000055595 GCCAATATCCTGTATTCAGAT pLKO.1 2549 CDS 100% 4.950 3.465 N PCDHAC1 n/a
10 TRCN0000432108 GATGAAGACCTCGATTCTAAT pLKO_005 1272 CDS 100% 13.200 7.920 N PCDHAC1 n/a
11 TRCN0000056018 GCCTGAAACATCTGTATTATA pLKO.1 4112 3UTR 100% 15.000 7.500 Y PCDHA8 n/a
12 TRCN0000094754 GCTGCTACAGAAGTGCTTTAA pLKO.1 4084 3UTR 100% 13.200 6.600 Y Pcdha5 n/a
13 TRCN0000094877 ACAAATTCATTATCCCAGGAT pLKO.1 2872 CDS 100% 2.640 1.320 Y Pcdha8 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_018898.3, 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_08628 pDONR223 100% 84.5% 84.2% None (many diffs) n/a
2 ccsbBroad304_08628 pLX_304 0% 84.5% 84.2% V5 (many diffs) n/a
3 TRCN0000476826 AATTAAATCCCCATATTCGCTGGA pLX_317 11.7% 84.5% 84.2% V5 (many diffs) n/a
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