Transcript: Mouse XM_006498188.3

PREDICTED: Mus musculus prenyl (solanesyl) diphosphate synthase, subunit 1 (Pdss1), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Pdss1 (56075)
Length:
1546
CDS:
128..1243

Additional Resources:

NCBI RefSeq record:
XM_006498188.3
NBCI Gene record:
Pdss1 (56075)

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_006498188.3, 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 TRCN0000099019 CGAGCGTGTAATATTCATCAT pLKO.1 545 CDS 100% 4.950 6.930 N Pdss1 n/a
2 TRCN0000099018 CGAATACTACTTCGATGGCAA pLKO.1 484 CDS 100% 2.640 3.696 N Pdss1 n/a
3 TRCN0000366016 CTAATGGCCCGAGCGTGTAAT pLKO_005 536 CDS 100% 13.200 10.560 N Pdss1 n/a
4 TRCN0000099017 CCATAGCCTTAGTTGCAGAAA pLKO.1 600 CDS 100% 4.950 3.960 N Pdss1 n/a
5 TRCN0000036353 CTGTTCTTGCTGGAGATTTAA pLKO.1 720 CDS 100% 15.000 10.500 N PDSS1 n/a
6 TRCN0000327877 CTGTTCTTGCTGGAGATTTAA pLKO_005 720 CDS 100% 15.000 10.500 N PDSS1 n/a
7 TRCN0000374427 CCCAACTATGCATAGTATATC pLKO_005 301 CDS 100% 13.200 9.240 N Pdss1 n/a
8 TRCN0000374458 CTGATAGCCAACAGTTGTAAA pLKO_005 917 CDS 100% 13.200 9.240 N Pdss1 n/a
9 TRCN0000366092 TCTATGTTAGCCCAAGTTATT pLKO_005 794 CDS 100% 13.200 9.240 N Pdss1 n/a
10 TRCN0000366090 TGGTTCATGATGACGTTATTG pLKO_005 639 CDS 100% 13.200 9.240 N Pdss1 n/a
11 TRCN0000374494 ATGAGATAGCCTATCAGTATG pLKO_005 975 CDS 100% 10.800 7.560 N Pdss1 n/a
12 TRCN0000099016 CCAGAAATGAATGCTATGATA pLKO.1 1025 CDS 100% 5.625 3.938 N Pdss1 n/a
13 TRCN0000099015 CCTCTTCTTTCTGGCAGCTAT pLKO.1 1252 3UTR 100% 4.950 2.970 N Pdss1 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_006498188.3, 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_11752 pDONR223 100% 66.3% 57.1% None (many diffs) n/a
2 ccsbBroad304_11752 pLX_304 0% 66.3% 57.1% V5 (many diffs) n/a
3 TRCN0000480249 ACCTTGCTTTTATCTCTCATGCCC pLX_317 44.2% 66.3% 57.1% V5 (many diffs) n/a
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