Transcript: Mouse XM_006523988.3

PREDICTED: Mus musculus PR domain containing 9 (Prdm9), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Prdm9 (213389)
Length:
3616
CDS:
172..2715

Additional Resources:

NCBI RefSeq record:
XM_006523988.3
NBCI Gene record:
Prdm9 (213389)

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_006523988.3, 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 TRCN0000085194 CCTCCCTTGAAGAAGGAAATA pLKO.1 641 CDS 100% 13.200 9.240 N Prdm9 n/a
2 TRCN0000085193 GCTGATTACCAAGGGAAGAAA pLKO.1 1062 CDS 100% 5.625 3.938 N Prdm9 n/a
3 TRCN0000085196 CAGGATGATGACTATCTCTAT pLKO.1 775 CDS 100% 4.950 3.465 N Prdm9 n/a
4 TRCN0000085197 CTGGGCTAAGAATTAGTCCAT pLKO.1 914 CDS 100% 2.640 1.848 N Prdm9 n/a
5 TRCN0000085195 GCCTTTCAATATCACAGGAAA pLKO.1 1177 CDS 100% 4.950 2.970 N Prdm9 n/a
6 TRCN0000015176 GCTATGAGTATGTGGATGGAA pLKO.1 1085 CDS 100% 3.000 2.100 N PRDM7 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_006523988.3, 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.