Transcript: Mouse XM_006527183.3

PREDICTED: Mus musculus pumilio RNA-binding family member 3 (Pum3), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Pum3 (52874)
Length:
3679
CDS:
393..2339

Additional Resources:

NCBI RefSeq record:
XM_006527183.3
NBCI Gene record:
Pum3 (52874)

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_006527183.3, 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 TRCN0000173994 GCGGACCTAAAGTCACATCTA pLKO.1 523 CDS 100% 4.950 6.930 N Pum3 n/a
2 TRCN0000194175 GCGTTTGACTGTATTGATGAT pLKO.1 1611 CDS 100% 4.950 6.930 N Pum3 n/a
3 TRCN0000175742 GCGACTTGGTTGAATTAAGTA pLKO.1 1003 CDS 100% 5.625 4.500 N Pum3 n/a
4 TRCN0000217255 CAGGACATCTGGTTCTCAAAT pLKO.1 2050 CDS 100% 13.200 9.240 N Pum3 n/a
5 TRCN0000174903 GCATTTGTTAAAGGACCTATT pLKO.1 2422 3UTR 100% 10.800 7.560 N Pum3 n/a
6 TRCN0000174938 GTTTAATGTCAACTGTCTGAT pLKO.1 2474 3UTR 100% 4.950 3.465 N Pum3 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_006527183.3, 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_07512 pDONR223 100% 85.7% 89.5% None (many diffs) n/a
2 ccsbBroad304_07512 pLX_304 0% 85.7% 89.5% V5 (many diffs) n/a
3 TRCN0000476623 ACACAACCGCCAGCAGCAAGTTGA pLX_317 20.2% 85.7% 89.5% V5 (many diffs) n/a
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