Transcript: Human NR_003610.1

Homo sapiens nuclear pore complex-interacting protein (PDXDC2P-NPIPB14P), non-coding RNA.

Source:
NCBI, updated 2018-06-03
Taxon:
Homo sapiens (human)
Gene:
PDXDC2P-NPIPB14P (283970)
Length:
4298
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
NR_003610.1
NBCI Gene record:
PDXDC2P-NPIPB14P (283970)

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 NR_003610.1, 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 TRCN0000136113 CCTCCCGAATGTCTTCTTATT pLKO.1 3902 3UTR 100% 13.200 9.240 N PDXDC2P-NPIPB14P n/a
2 TRCN0000137068 CCTCTGCAAGAAAGCCTCTTT pLKO.1 2527 3UTR 100% 4.950 2.970 N PDXDC2P-NPIPB14P n/a
3 TRCN0000264027 CGTAGACAGGAAGGAATTAAA pLKO_005 2362 3UTR 100% 15.000 7.500 Y PKD1P1 n/a
4 TRCN0000133781 CCTTATGGCTATGCAGAATTT pLKO.1 537 3UTR 100% 13.200 6.600 Y PDXDC2P-NPIPB14P n/a
5 TRCN0000140226 GCCGTAGACAGGAAGGAATTA pLKO.1 2360 3UTR 100% 13.200 6.600 Y NPIPA1 n/a
6 TRCN0000135831 CCCTGTTCTCATTCTGCAAAT pLKO.1 1667 3UTR 100% 10.800 5.400 Y PDXDC2P-NPIPB14P n/a
7 TRCN0000141615 CCTCCAACTCAACAACATTCT pLKO.1 3851 3UTR 100% 4.950 2.475 Y NPIPA1 n/a
8 TRCN0000151687 CCTTAAATGATGCTCAGCTAA pLKO.1 2797 3UTR 100% 4.950 2.475 Y NPIPB7 n/a
9 TRCN0000140729 GCTGGGATTTATCAGCCATCA pLKO.1 2115 3UTR 100% 4.050 2.025 Y NPIPB15 n/a
10 TRCN0000163994 CCACGTTAGCTGAAATGGGAA pLKO.1 204 3UTR 100% 2.640 1.320 Y PDXDC1 n/a
11 TRCN0000135390 GCTTATTTCCACGAAGAGGAA pLKO.1 578 3UTR 100% 2.640 1.320 Y PDXDC2P-NPIPB14P n/a
12 TRCN0000264026 TACCTCACAGCTGAAACTTTA pLKO_005 3803 3UTR 100% 0.000 0.000 Y PKD1P1 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 NR_003610.1, 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_11663 pDONR223 100% 34.7% None (many diffs) n/a
2 ccsbBroad304_11663 pLX_304 0% 34.7% V5 (many diffs) n/a
3 TRCN0000475295 AGTCTTGCGTGTCTGTGAATAAAT pLX_317 24% 34.7% V5 (many diffs) n/a
4 ccsbBroadEn_10342 pDONR223 100% 28.7% None 1_343del;1580_4298del n/a
5 ccsbBroad304_10342 pLX_304 0% 28.7% V5 1_343del;1580_4298del n/a
6 TRCN0000479086 GTGACACGCCACTTGGAGCACCGT pLX_317 32% 28.7% V5 1_343del;1580_4298del n/a
7 ccsbBroadEn_15304 pDONR223 57.8% 6.5% None (many diffs) n/a
8 ccsbBroad304_15304 pLX_304 0% 6.5% V5 (many diffs) n/a
9 TRCN0000465408 CACCCATAGAAGAATTACCGCCGA pLX_317 100% 4.4% V5 (not translated due to prior stop codon) (many diffs) n/a
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