Transcript: Human NM_018904.3

Homo sapiens protocadherin alpha 13 (PCDHA13), transcript variant 1, mRNA.

Source:
NCBI, updated 2019-08-03
Taxon:
Homo sapiens (human)
Gene:
PCDHA13 (56136)
Length:
5408
CDS:
146..2998

Additional Resources:

NCBI RefSeq record:
NM_018904.3
NBCI Gene record:
PCDHA13 (56136)

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_018904.3, 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 TRCN0000425784 GACTGGATCCCAACGATTATT pLKO_005 657 CDS 100% 15.000 21.000 N PCDHA13 n/a
2 TRCN0000055686 GCGCCATTATTGCCCTAATCA pLKO.1 1242 CDS 100% 5.625 7.875 N PCDHA13 n/a
3 TRCN0000417555 CATTAGTGATCAAGCTAAATG pLKO_005 921 CDS 100% 13.200 9.240 N PCDHA13 n/a
4 TRCN0000055685 GATGGTACAAATGGAGATATA pLKO.1 956 CDS 100% 13.200 9.240 N PCDHA13 n/a
5 TRCN0000432545 GTATGGCCTGCAGTGGTATAT pLKO_005 998 CDS 100% 13.200 9.240 N PCDHA13 n/a
6 TRCN0000055684 GAGAGGAAATTCAGGAACATA pLKO.1 750 CDS 100% 5.625 3.938 N PCDHA13 n/a
7 TRCN0000055683 CCCTGAAAGCAAGAAACGAAT pLKO.1 544 CDS 100% 4.950 3.465 N PCDHA13 n/a
8 TRCN0000055687 CGCTGGTGGATGTCAATGTTT pLKO.1 2220 CDS 100% 5.625 3.375 N PCDHA13 n/a
9 TRCN0000056018 GCCTGAAACATCTGTATTATA pLKO.1 4042 3UTR 100% 15.000 7.500 Y PCDHA8 n/a
10 TRCN0000094754 GCTGCTACAGAAGTGCTTTAA pLKO.1 4014 3UTR 100% 13.200 6.600 Y Pcdha5 n/a
11 TRCN0000053275 CTGGAGGTAAATCTGCAGAAT pLKO.1 368 CDS 100% 4.950 2.475 Y PCDHA9 n/a
12 TRCN0000094877 ACAAATTCATTATCCCAGGAT pLKO.1 2802 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_018904.3, 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_02234 pDONR223 100% 81.7% 80.9% None (many diffs) n/a
2 ccsbBroad304_02234 pLX_304 0% 81.7% 80.9% V5 (many diffs) n/a
3 TRCN0000476214 CTTCGGTCTAAGTTTTCTGTTTTA pLX_317 12.4% 81.7% 80.9% V5 (many diffs) n/a
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