Transcript: Human NM_018911.3

Homo sapiens protocadherin alpha 8 (PCDHA8), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-08-02
Taxon:
Homo sapiens (human)
Gene:
PCDHA8 (56140)
Length:
5398
CDS:
136..2988

Additional Resources:

NCBI RefSeq record:
NM_018911.3
NBCI Gene record:
PCDHA8 (56140)

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_018911.3, 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 TRCN0000426362 ACTGGTTGAGCTCGTATTAAG pLKO_005 705 CDS 100% 13.200 18.480 N PCDHA8 n/a
2 TRCN0000056022 CATGATTACTTCATGCTAGAT pLKO.1 658 CDS 100% 0.495 0.396 N PCDHA8 n/a
3 TRCN0000056021 GTGGAGGTGAAGGATGTTAAT pLKO.1 496 CDS 100% 13.200 9.240 N PCDHA8 n/a
4 TRCN0000427831 GAATGCCAGACTCTCGGTTTC pLKO_005 572 CDS 100% 6.000 4.200 N PCDHA8 n/a
5 TRCN0000056019 GCCTTGTTGAAACTATGGTTA pLKO.1 983 CDS 100% 4.950 3.465 N PCDHA8 n/a
6 TRCN0000056020 GTAGGCGAAGAGCAAGATTTA pLKO.1 2488 CDS 100% 13.200 7.920 N PCDHA8 n/a
7 TRCN0000436372 TAAGTCTGCAGAATGGCATTT pLKO_005 365 CDS 100% 10.800 6.480 N PCDHA8 n/a
8 TRCN0000056018 GCCTGAAACATCTGTATTATA pLKO.1 4032 3UTR 100% 15.000 7.500 Y PCDHA8 n/a
9 TRCN0000056181 AGATCGAAATACGGGAGAAAT pLKO.1 1020 CDS 100% 13.200 6.600 Y PCDHA6 n/a
10 TRCN0000094754 GCTGCTACAGAAGTGCTTTAA pLKO.1 4004 3UTR 100% 13.200 6.600 Y Pcdha5 n/a
11 TRCN0000094877 ACAAATTCATTATCCCAGGAT pLKO.1 2792 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_018911.3, 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_10461 pDONR223 100% 92.2% 90.4% None (many diffs) n/a
2 ccsbBroad304_10461 pLX_304 0% 92.2% 90.4% V5 (not translated due to prior stop codon) (many diffs) n/a
3 TRCN0000491834 GGCGCATTCTGATCGATACCCATC pLX_317 13.2% 92.2% 90.4% V5 (not translated due to prior stop codon) (many diffs) n/a
4 ccsbBroadEn_08631 pDONR223 100% 84.8% 83.1% None (many diffs) n/a
5 ccsbBroad304_08631 pLX_304 0% 84.8% 83.1% V5 (many diffs) n/a
6 TRCN0000477948 TTCGGGTTGAACGATACGTTCCTT pLX_317 11.8% 84.8% 83.1% V5 (many diffs) n/a
7 ccsbBroadEn_02234 pDONR223 100% 81.7% 80.3% None (many diffs) n/a
8 ccsbBroad304_02234 pLX_304 0% 81.7% 80.3% V5 (many diffs) n/a
9 TRCN0000476214 CTTCGGTCTAAGTTTTCTGTTTTA pLX_317 12.4% 81.7% 80.3% V5 (many diffs) n/a
10 ccsbBroadEn_03707 pDONR223 100% 59.5% 58.6% None (many diffs) n/a
11 ccsbBroad304_03707 pLX_304 0% 59.5% 58.6% V5 (many diffs) n/a
12 TRCN0000466780 TTAATTAGCTTAAAGCACGGCATA pLX_317 17.1% 59.5% 58.6% V5 (many diffs) n/a
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