Transcript: Mouse XM_006534296.3

PREDICTED: Mus musculus STE20-related kinase adaptor alpha (Strada), transcript variant X5, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Strada (72149)
Length:
2172
CDS:
325..1449

Additional Resources:

NCBI RefSeq record:
XM_006534296.3
NBCI Gene record:
Strada (72149)

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_006534296.3, 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 TRCN0000025329 GCCACCTTCATCGCAGATAAT pLKO.1 556 CDS 100% 13.200 18.480 N Strada n/a
2 TRCN0000276693 GCCACCTTCATCGCAGATAAT pLKO_005 556 CDS 100% 13.200 18.480 N Strada n/a
3 TRCN0000025332 CCACTCAGATGCTGCTAGAAA pLKO.1 1004 CDS 100% 5.625 7.875 N Strada n/a
4 TRCN0000025330 GCAGCAACCTTAGCATGATTA pLKO.1 797 CDS 100% 13.200 9.240 N Strada n/a
5 TRCN0000276631 GCAGCAACCTTAGCATGATTA pLKO_005 797 CDS 100% 13.200 9.240 N Strada n/a
6 TRCN0000276696 ATCTTCGGCCTGGTGACAAAC pLKO_005 1393 CDS 100% 10.800 7.560 N Strada n/a
7 TRCN0000276695 CTGAGCACCAGGTCAGTTAAG pLKO_005 1912 3UTR 100% 10.800 7.560 N Strada n/a
8 TRCN0000276630 TGAATTTAGCCAGGTACAAAC pLKO_005 407 CDS 100% 10.800 7.560 N Strada n/a
9 TRCN0000025333 CCATCCCAATATAGTACCGTA pLKO.1 531 CDS 100% 2.640 1.848 N Strada n/a
10 TRCN0000025331 CGTCACATCATTTATGGCGTA pLKO.1 588 CDS 100% 2.160 1.512 N Strada 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_006534296.3, 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 TRCN0000487854 GAATGTCTAGGATGTCATATAACA pLX_317 21.7% 81.7% 88.3% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_12979 pDONR223 100% 54.1% 58.8% None (many diffs) n/a
3 ccsbBroad304_12979 pLX_304 0% 54.1% 58.8% V5 (many diffs) n/a
4 TRCN0000471765 ATCATTTCTTACTGCGCAAGTCCT pLX_317 64.4% 54.1% 58.8% V5 (many diffs) n/a
5 ccsbBroadEn_15217 pDONR223 0% 54.1% 58.8% None (many diffs) n/a
6 ccsbBroad304_15217 pLX_304 0% 54.1% 58.8% V5 (many diffs) n/a
7 TRCN0000481363 CTTCCTGGCGGTTGGATTAAAATA pLX_317 70.2% 54.1% 58.8% V5 (many diffs) n/a
8 TRCN0000488716 GGTCGCGAGCCGTTCCGTTTAGGT pLX_317 17.8% 53.7% 68.7% V5 (not translated due to prior stop codon) (many diffs) n/a
9 TRCN0000491266 TCCCTCTTGAAAGCGGACAAACCA pLX_317 13.9% 53.7% 68.7% V5 (not translated due to prior stop codon) (many diffs) n/a
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