Transcript: Human XM_017022827.2

PREDICTED: Homo sapiens nuclear pore complex interacting protein family member B9 (NPIPB9), transcript variant X17, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NPIPB9 (100507607)
Length:
1496
CDS:
404..1342

Additional Resources:

NCBI RefSeq record:
XM_017022827.2
NBCI Gene record:
NPIPB9 (100507607)

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 XM_017022827.2, 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 TRCN0000139541 CCACCCTCAGTGGATGATAAT pLKO.1 920 CDS 100% 13.200 6.600 Y NPIPB15 n/a
2 TRCN0000145534 CTGAGGAAACTAAGCATGAAA pLKO.1 389 5UTR 100% 5.625 2.813 Y NPIPA1 n/a
3 TRCN0000141615 CCTCCAACTCAACAACATTCT pLKO.1 842 CDS 100% 4.950 2.475 Y NPIPA1 n/a
4 TRCN0000141507 CTTCTGCAAGAAAGCCTCTTT pLKO.1 564 CDS 100% 4.950 2.475 Y NPIPB15 n/a
5 TRCN0000141710 GAGGACTACCACAAATGCAAA pLKO.1 536 CDS 100% 4.950 2.475 Y NPIPB15 n/a
6 TRCN0000141673 CCTCAGTGGATGATAATCTCA pLKO.1 1113 CDS 100% 3.000 1.500 Y NPIPB15 n/a
7 TRCN0000141237 CCTCAGTGGATGATAATCTGA pLKO.1 987 CDS 100% 3.000 1.500 Y NPIPB15 n/a
8 TRCN0000140776 GAATGTCTCTTTGTCCCGCTT pLKO.1 1010 CDS 100% 2.160 1.080 Y NPIPB15 n/a
9 TRCN0000264026 TACCTCACAGCTGAAACTTTA pLKO_005 794 CDS 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 XM_017022827.2, 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_13743 pDONR223 100% 50.4% 47.3% None (many diffs) n/a
2 ccsbBroad304_13743 pLX_304 0% 50.4% 47.3% V5 (many diffs) n/a
3 TRCN0000477724 CCAAAATCCTACACAGGAGGTGAC pLX_317 25.2% 50.4% 47.3% V5 (many diffs) n/a
4 ccsbBroadEn_15304 pDONR223 57.8% 38.1% 34.2% None (many diffs) n/a
5 ccsbBroad304_15304 pLX_304 0% 38.1% 34.2% V5 (many diffs) n/a
6 TRCN0000465408 CACCCATAGAAGAATTACCGCCGA pLX_317 100% 20.4% 18.5% V5 (not translated due to prior stop codon) (many diffs) n/a
7 ccsbBroadEn_15006 pDONR223 47.5% 31.1% 19.4% None (many diffs) n/a
8 ccsbBroad304_15006 pLX_304 0% 31.1% 19.4% V5 (not translated due to prior stop codon) (many diffs) n/a
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