Transcript: Mouse XR_003953716.1

PREDICTED: Mus musculus NADH:ubiquinone oxidoreductase complex assembly factor 5 (Ndufaf5), transcript variant X2, misc_RNA.

Source:
NCBI, updated 2019-08-08
Taxon:
Mus musculus (mouse)
Gene:
Ndufaf5 (69487)
Length:
14621
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_003953716.1
NBCI Gene record:
Ndufaf5 (69487)

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 Mouse XR_003953716.1, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000217327 GTGCAACCGATTGAGCTATTT pLKO.1 1345 3UTR 100% 13.200 18.480 N Ndufaf5 n/a
2 TRCN0000276957 TCGGATTGCAGACCGTGTTTA pLKO_005 359 3UTR 100% 13.200 18.480 N Ndufaf5 n/a
3 TRCN0000181659 GAAATGTACCGGAATGAGGAT pLKO.1 1086 3UTR 100% 2.640 3.696 N Ndufaf5 n/a
4 TRCN0000215360 CTATTGCACTATTATCCTAAA pLKO.1 2423 3UTR 100% 10.800 7.560 N Ndufaf5 n/a
5 TRCN0000200164 CGGAATGAGGATGGTTCCATA pLKO.1 1095 3UTR 100% 4.950 3.465 N Ndufaf5 n/a
6 TRCN0000178666 CCACATATTTCTCCTTTCACT pLKO.1 768 3UTR 100% 3.000 2.100 N Ndufaf5 n/a
7 TRCN0000276955 CCACATATTTCTCCTTTCACT pLKO_005 768 3UTR 100% 3.000 2.100 N Ndufaf5 n/a
8 TRCN0000182551 GCTAGCAGAAACTGAAAGGGA pLKO.1 734 3UTR 100% 0.750 0.525 N Ndufaf5 n/a
9 TRCN0000276958 GCTAGCAGAAACTGAAAGGGA pLKO_005 734 3UTR 100% 0.750 0.525 N Ndufaf5 n/a
10 TRCN0000181579 GCAACTGTTCTTGGAACAGAA pLKO.1 1015 3UTR 100% 0.495 0.347 N Ndufaf5 n/a
11 TRCN0000182216 CATACCTGCCACCTTTCAGAT pLKO.1 1112 3UTR 100% 4.950 2.970 N Ndufaf5 n/a
12 TRCN0000276959 CATACCTGCCACCTTTCAGAT pLKO_005 1112 3UTR 100% 4.950 2.970 N Ndufaf5 n/a
13 TRCN0000182366 GCAGAAACTGAAAGGGAAGGA pLKO.1 738 3UTR 100% 2.640 1.584 N Ndufaf5 n/a
14 TRCN0000054408 ACGCCTTTAATCCCAGCACTT pLKO.1 4910 3UTR 100% 4.050 2.025 Y Mtif2 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_003953716.1, 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_12547 pDONR223 100% 2.8% None (many diffs) n/a
2 ccsbBroad304_12547 pLX_304 0% 2.8% V5 (many diffs) n/a
3 TRCN0000473995 CGCGATTGGAGGAAGGCCAGTAGC pLX_317 100% 2.8% V5 (many diffs) n/a
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