Transcript: Mouse XM_006541563.3

PREDICTED: Mus musculus SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 1 (Smarca1), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Smarca1 (93761)
Length:
3461
CDS:
180..3353

Additional Resources:

NCBI RefSeq record:
XM_006541563.3
NBCI Gene record:
Smarca1 (93761)

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_006541563.3, 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 TRCN0000232332 ATTCAGCGAAGGATCAGTATT pLKO_005 2916 CDS 100% 13.200 18.480 N Smarca1 n/a
2 TRCN0000232329 GAGGACTAAACTGGTTGATTT pLKO_005 742 CDS 100% 13.200 18.480 N Smarca1 n/a
3 TRCN0000084386 CCGAGGACTAAACTGGTTGAT pLKO.1 740 CDS 100% 4.950 6.930 N Smarca1 n/a
4 TRCN0000084384 CGTGAGTTCAAGTCAACTAAT pLKO.1 1158 CDS 100% 13.200 10.560 N Smarca1 n/a
5 TRCN0000232331 TACGAGTCTTCCGTCTCATTA pLKO_005 1990 CDS 100% 13.200 10.560 N Smarca1 n/a
6 TRCN0000084387 GCCTACTTTAGAGAGGCTTTA pLKO.1 2421 CDS 100% 10.800 8.640 N Smarca1 n/a
7 TRCN0000084385 CGAGGACTAAACTGGTTGATT pLKO.1 741 CDS 100% 5.625 4.500 N Smarca1 n/a
8 TRCN0000232330 GGTTCCATCTCTCCGTGTTAT pLKO_005 938 CDS 100% 13.200 9.240 N Smarca1 n/a
9 TRCN0000303643 GTGTATTCATGGTACTCTAAG pLKO_005 3429 3UTR 100% 10.800 7.560 N SMARCA1 n/a
10 TRCN0000050624 GCTCAAATTGAACGTGGAGAA pLKO.1 2889 CDS 100% 4.050 2.835 N SMARCA1 n/a
11 TRCN0000299418 GCTCAAATTGAACGTGGAGAA pLKO_005 2889 CDS 100% 4.050 2.835 N SMARCA1 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_006541563.3, 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

No results found.