Transcript: Mouse XM_006502870.1

PREDICTED: Mus musculus protein tyrosine phosphatase, receptor type, F (Ptprf), transcript variant X7, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Ptprf (19268)
Length:
7669
CDS:
347..6061

Additional Resources:

NCBI RefSeq record:
XM_006502870.1
NBCI Gene record:
Ptprf (19268)

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_006502870.1, 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 TRCN0000220432 CGCTTTGAGGTAATTGAGTTT pLKO.1 575 CDS 100% 4.950 6.930 N Ptprf n/a
2 TRCN0000279237 CGCTTTGAGGTAATTGAGTTT pLKO_005 575 CDS 100% 4.950 6.930 N Ptprf n/a
3 TRCN0000220428 GCCTCGAATTACGTGGATGAA pLKO.1 529 CDS 100% 4.950 6.930 N Ptprf n/a
4 TRCN0000279236 GCCTCGAATTACGTGGATGAA pLKO_005 529 CDS 100% 4.950 6.930 N Ptprf n/a
5 TRCN0000220430 CCACCAGTGTTACTCTGACAT pLKO.1 1359 CDS 100% 4.950 3.465 N Ptprf n/a
6 TRCN0000297639 CCACCAGTGTTACTCTGACAT pLKO_005 1359 CDS 100% 4.950 3.465 N Ptprf n/a
7 TRCN0000220429 GCCGTATGTGAAATGGATGAT pLKO.1 1144 CDS 100% 4.950 3.465 N Ptprf n/a
8 TRCN0000297635 GCCGTATGTGAAATGGATGAT pLKO_005 1144 CDS 100% 4.950 3.465 N Ptprf n/a
9 TRCN0000220431 GCCCTTCAAGATCCTGTACAA pLKO.1 3463 CDS 100% 4.950 2.970 N Ptprf n/a
10 TRCN0000297638 GCCCTTCAAGATCCTGTACAA pLKO_005 3463 CDS 100% 4.950 2.970 N Ptprf n/a
11 TRCN0000002856 GTCAGGTGGTTCTACATTGTT pLKO.1 3722 CDS 100% 5.625 3.938 N PTPRF n/a
12 TRCN0000279927 GTCAGGTGGTTCTACATTGTT pLKO_005 3722 CDS 100% 5.625 3.938 N PTPRF 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_006502870.1, 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_15555 pDONR223 0% 15% 12% None (many diffs) n/a
2 ccsbBroad304_15555 pLX_304 0% 15% 12% V5 (many diffs) n/a
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