Transcript: Human XM_024450681.1

PREDICTED: Homo sapiens SMG6 nonsense mediated mRNA decay factor (SMG6), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SMG6 (23293)
Length:
6347
CDS:
534..4700

Additional Resources:

NCBI RefSeq record:
XM_024450681.1
NBCI Gene record:
SMG6 (23293)

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_024450681.1, 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 TRCN0000418284 ACAAGAGGATCGTAGTCTAAA pLKO_005 818 CDS 100% 13.200 18.480 N SMG6 n/a
2 TRCN0000419520 CCGCTGCACCTGCTTACTTAA pLKO_005 3392 CDS 100% 13.200 18.480 N SMG6 n/a
3 TRCN0000040016 GCTCGAAATCAGACCTTTGTT pLKO.1 4160 CDS 100% 5.625 7.875 N SMG6 n/a
4 TRCN0000040017 GCCCGTTAAAGATGTCTGCAA pLKO.1 716 CDS 100% 2.640 2.112 N SMG6 n/a
5 TRCN0000424681 GCCAGTGATACAGCGAATTAT pLKO_005 2664 CDS 100% 15.000 10.500 N SMG6 n/a
6 TRCN0000416285 AGGAGGAAGTTGCGAATAAAC pLKO_005 1003 CDS 100% 13.200 9.240 N SMG6 n/a
7 TRCN0000433641 TTGACGCTGTCTATTACTATA pLKO_005 2788 CDS 100% 13.200 9.240 N SMG6 n/a
8 TRCN0000040014 CGCTCAGACAAACGAAGGAAT pLKO.1 1176 CDS 100% 4.950 3.465 N SMG6 n/a
9 TRCN0000040015 GCAGGTTACTTACAAGTTCAA pLKO.1 2516 CDS 100% 4.950 3.465 N SMG6 n/a
10 TRCN0000010348 CATGAACCCAAGTCGGCTTCT pLKO.1 5232 3UTR 100% 4.050 2.835 N SMG6 n/a
11 TRCN0000040013 GCCAGAGACAAGGACAACTTA pLKO.1 5949 3UTR 100% 5.625 3.375 N SMG6 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_024450681.1, 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_11713 pDONR223 100% 36.8% 36.8% None 1_2631del n/a
2 ccsbBroad304_11713 pLX_304 0% 36.8% 36.8% V5 1_2631del n/a
3 TRCN0000466599 TATTGTCTCCGAAAGTGACATGGT pLX_317 24% 36.8% 36.8% V5 1_2631del n/a
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