Transcript: Human XM_017023252.1

PREDICTED: Homo sapiens nucleotide binding protein 1 (NUBP1), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NUBP1 (4682)
Length:
1840
CDS:
701..1594

Additional Resources:

NCBI RefSeq record:
XM_017023252.1
NBCI Gene record:
NUBP1 (4682)

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_017023252.1, 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 TRCN0000160771 CCGCTCATAGGTAAGAATTGT pLKO.1 1442 CDS 100% 5.625 7.875 N NUBP1 n/a
2 TRCN0000349662 CCGCTCATAGGTAAGAATTGT pLKO_005 1442 CDS 100% 5.625 7.875 N NUBP1 n/a
3 TRCN0000204019 GATCCGCTCATAGGTAAGAAT pLKO.1 1439 CDS 100% 5.625 3.938 N NUBP1 n/a
4 TRCN0000185078 CATAGGTAAGAATTGTGACAA pLKO.1 1447 CDS 100% 4.950 3.465 N NUBP1 n/a
5 TRCN0000188806 CGAGAGAATGTTCAGGACCAA pLKO.1 1597 3UTR 100% 2.640 1.848 N NUBP1 n/a
6 TRCN0000349663 CGAGAGAATGTTCAGGACCAA pLKO_005 1597 3UTR 100% 2.640 1.848 N NUBP1 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_017023252.1, 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_10988 pDONR223 100% 93.4% 92.8% None (many diffs) n/a
2 ccsbBroad304_10988 pLX_304 0% 93.4% 92.8% V5 (many diffs) n/a
3 TRCN0000477882 AGACTGTTTACCAAGGGGTCAGGT pLX_317 23.5% 93.4% 92.8% V5 (many diffs) n/a
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