Transcript: Mouse XR_380074.3

PREDICTED: Mus musculus minichromosome maintenance 9 homologous recombination repair factor (Mcm9), transcript variant X4, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Mcm9 (71567)
Length:
5221
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_380074.3
NBCI Gene record:
Mcm9 (71567)

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_380074.3, 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 TRCN0000192041 CCACGGTCTATGAAAGTTATT pLKO.1 1568 3UTR 100% 13.200 18.480 N Mcm9 n/a
2 TRCN0000241261 CTTACGGTCTCACGGTGTTAA pLKO_005 3213 3UTR 100% 13.200 18.480 N Mcm9 n/a
3 TRCN0000241260 GAGTACCATAAGAACGATATT pLKO_005 974 3UTR 100% 13.200 18.480 N Mcm9 n/a
4 TRCN0000154982 GCGGGATTACATGTGTAACAA pLKO.1 1345 3UTR 100% 5.625 7.875 N MCM9 n/a
5 TRCN0000190394 CCATCGTCATGTCCAAGTTTA pLKO.1 1424 3UTR 100% 13.200 10.560 N Mcm9 n/a
6 TRCN0000241259 CCATCGTCATGTCCAAGTTTA pLKO_005 1424 3UTR 100% 13.200 10.560 N Mcm9 n/a
7 TRCN0000215811 CTGCTGTATTGACGAATTTAA pLKO.1 2149 3UTR 100% 15.000 10.500 N Mcm9 n/a
8 TRCN0000241262 TCTGCTGTATTGACGAATTTA pLKO_005 2148 3UTR 100% 15.000 10.500 N Mcm9 n/a
9 TRCN0000241263 CTTGGAGTTCGAGCGGGATTA pLKO_005 1333 3UTR 100% 10.800 7.560 N Mcm9 n/a
10 TRCN0000150721 CGGGATTACATGTGTAACAAA pLKO.1 1346 3UTR 100% 5.625 3.938 N MCM9 n/a
11 TRCN0000156219 CCACAGGAATTGGATCTACTA pLKO.1 2043 3UTR 100% 4.950 3.465 N MCM9 n/a
12 TRCN0000191732 GATATTCTTCTGATCCTGAAA pLKO.1 989 3UTR 100% 4.950 3.465 N Mcm9 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_380074.3, 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_09900 pDONR223 100% 19.5% None (many diffs) n/a
2 ccsbBroad304_09900 pLX_304 0% 19.5% V5 (many diffs) n/a
3 TRCN0000472476 ATTAATAATCGAGACTTTACAAAT pLX_317 46.1% 19.5% V5 (many diffs) n/a
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