Transcript: Mouse XM_006522966.3

PREDICTED: Mus musculus single-minded homolog 2 (Drosophila) (Sim2), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Sim2 (20465)
Length:
2750
CDS:
620..2605

Additional Resources:

NCBI RefSeq record:
XM_006522966.3
NBCI Gene record:
Sim2 (20465)

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 Mouse XM_006522966.3, 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 TRCN0000095940 GCGAACTGTATATGCACGATA pLKO.1 2710 3UTR 100% 4.950 6.930 N Sim2 n/a
2 TRCN0000095941 GCGGTCTTTCTTTCTTCGAAT pLKO.1 1102 CDS 100% 4.950 6.930 N Sim2 n/a
3 TRCN0000095942 CCTAAAGATCAGACAGTACAT pLKO.1 1195 CDS 100% 4.950 3.465 N Sim2 n/a
4 TRCN0000095943 CCTTGACCTGAAGCTCATATT pLKO.1 1342 CDS 100% 13.200 7.920 N Sim2 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_006522966.3, 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_01536 pDONR223 100% 74.1% 74.1% None (many diffs) n/a
2 ccsbBroad304_01536 pLX_304 0% 74.1% 74.1% V5 (many diffs) n/a
3 TRCN0000472671 CTCCGTTCCATTCTTGTAGTAACT pLX_317 23.3% 74.1% 74.1% V5 (many diffs) n/a
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