Transcript: Human XR_001742270.2

PREDICTED: Homo sapiens pentatricopeptide repeat domain 2 (PTCD2), transcript variant X6, misc_RNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PTCD2 (79810)
Length:
10262
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001742270.2
NBCI Gene record:
PTCD2 (79810)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 XR_001742270.2, 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 TRCN0000134398 GCTCTACTCAAAGGAGAAATT pLKO.1 592 3UTR 100% 13.200 9.240 N PTCD2 n/a
2 TRCN0000133643 GCAGCTCTTAAGAAACAGAAT pLKO.1 1721 3UTR 100% 4.950 3.465 N PTCD2 n/a
3 TRCN0000134629 GCATTAGCTCTGAATCAGAAT pLKO.1 643 3UTR 100% 4.950 3.465 N PTCD2 n/a
4 TRCN0000136023 GAAGCTCTACTCAAAGGAGAA pLKO.1 589 3UTR 100% 4.050 2.835 N PTCD2 n/a
5 TRCN0000135733 CCAAGATGTGAAGTTCACCAA pLKO.1 486 3UTR 100% 2.640 1.848 N PTCD2 n/a
6 TRCN0000134514 GAATCAGAATGAGATGGCAAA pLKO.1 654 3UTR 100% 4.050 2.430 N PTCD2 n/a
7 TRCN0000155836 CCCAAAGTGCTGGGATTACAA pLKO.1 2811 3UTR 100% 5.625 2.813 Y KLHL30 n/a
8 TRCN0000148469 CTGGGTTCAAGCAATTCTCTT pLKO.1 2643 3UTR 100% 4.950 2.475 Y C16orf89 n/a
9 TRCN0000141025 CCCAAAGTGCTGGGATTACTT pLKO.1 2811 3UTR 100% 5.625 2.813 Y EID2B 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 XR_001742270.2, 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.

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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_12623 pDONR223 100% 6.5% None (many diffs) n/a
2 ccsbBroad304_12623 pLX_304 0% 6.5% V5 (many diffs) n/a
3 TRCN0000471465 GACGCACCCTGTTGTAATCACGAG pLX_317 72.3% 6.5% V5 (many diffs) n/a
4 ccsbBroadEn_11616 pDONR223 100% 1.6% None (many diffs) n/a
5 ccsbBroad304_11616 pLX_304 0% 1.6% V5 (many diffs) n/a
6 TRCN0000467678 CCTCCCCTCACACCTCGTCAAAAC pLX_317 100% 1.6% V5 (many diffs) n/a
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