Transcript: Human XR_001744547.2

PREDICTED: Homo sapiens nucleoporin 42 (NUP42), transcript variant X6, misc_RNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
NUP42 (11097)
Length:
1583
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001744547.2
NBCI Gene record:
NUP42 (11097)

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_001744547.2, 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 TRCN0000129199 CCAGTTCAGGTATCTCTACTT pLKO.1 875 3UTR 100% 4.950 6.930 N NUP42 n/a
2 TRCN0000422186 ATGTAAAGGATGGAGTAAATC pLKO_005 662 3UTR 100% 13.200 9.240 N NUP42 n/a
3 TRCN0000130187 CCACCTCTGGAACTTCTAAAT pLKO.1 1291 3UTR 100% 13.200 9.240 N NUP42 n/a
4 TRCN0000435158 GAATATAAGCTTCCATCAATA pLKO_005 1414 3UTR 100% 13.200 9.240 N NUP42 n/a
5 TRCN0000419844 TACAACTAGCCAGAGATATTC pLKO_005 266 3UTR 100% 13.200 9.240 N NUP42 n/a
6 TRCN0000431874 GATTCTGGAGCTTCAACTAAC pLKO_005 372 3UTR 100% 10.800 7.560 N NUP42 n/a
7 TRCN0000437474 GTCATCCAGCCATCCAGTTTC pLKO_005 291 3UTR 100% 10.800 7.560 N NUP42 n/a
8 TRCN0000128180 CCTCTGGAACTTCTAAATGTT pLKO.1 1294 3UTR 100% 5.625 3.938 N NUP42 n/a
9 TRCN0000194170 GAAACTTCTGGAAGGAATTGT pLKO.1 464 3UTR 100% 5.625 3.938 N Nupl2 n/a
10 TRCN0000130430 GCAGTGATAATGCTCAGAACT pLKO.1 761 3UTR 100% 4.950 3.465 N NUP42 n/a
11 TRCN0000129028 GCAGCATCATTGCAACAGATA pLKO.1 1175 3UTR 100% 4.950 2.970 N NUP42 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_001744547.2, 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_11593 pDONR223 100% 34.1% None (many diffs) n/a
2 ccsbBroad304_11593 pLX_304 0% 34.1% V5 (many diffs) n/a
3 TRCN0000473939 CCCCCAGAGACTCTGGACACTATT pLX_317 73.4% 34.1% V5 (many diffs) n/a
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