Transcript: Mouse XM_006509885.3

PREDICTED: Mus musculus platelet-derived growth factor, D polypeptide (Pdgfd), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Pdgfd (71785)
Length:
3345
CDS:
426..1520

Additional Resources:

NCBI RefSeq record:
XM_006509885.3
NBCI Gene record:
Pdgfd (71785)

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_006509885.3, 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 TRCN0000067712 TGCGCGAACTTTAGCTGCTAT pLKO.1 459 CDS 100% 4.950 6.930 N Pdgfd n/a
2 TRCN0000067708 CCTATCACTCTCCATCAATAA pLKO.1 988 CDS 100% 13.200 9.240 N Pdgfd n/a
3 TRCN0000067710 GTCAAGAACAAACCAGATTAA pLKO.1 830 CDS 100% 13.200 9.240 N Pdgfd n/a
4 TRCN0000067711 CCAGTGTCTTGGCAAGATGAT pLKO.1 1092 CDS 100% 4.950 3.465 N Pdgfd n/a
5 TRCN0000067709 GCTAAGAATATGGCTCTTGTT pLKO.1 1437 CDS 100% 4.950 3.465 N Pdgfd 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_006509885.3, 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_04204 pDONR223 100% 85.8% 84.8% None (many diffs) n/a
2 ccsbBroad304_04204 pLX_304 0% 85.8% 84.8% V5 (many diffs) n/a
3 TRCN0000473608 TGAAGAACCAATTTCGAATACATA pLX_317 48.7% 85.8% 84.8% V5 (many diffs) n/a
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