Transcript: Mouse XM_006504871.3

PREDICTED: Mus musculus PAN3 poly(A) specific ribonuclease subunit (Pan3), transcript variant X4, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Pan3 (72587)
Length:
5291
CDS:
575..3178

Additional Resources:

NCBI RefSeq record:
XM_006504871.3
NBCI Gene record:
Pan3 (72587)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001146404 AGCCAAGGAAGTATCGCCTG pXPR_003 GGG 633 24% 6 0.1734 Pan3 PAN3 77423
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Mouse XM_006504871.3, 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 TRCN0000417253 TAACGTGTCCCAGTCAAATAT pLKO_005 1414 CDS 100% 15.000 21.000 N PAN3 n/a
2 TRCN0000120025 CCAGTCAAATATGTCTGCCTT pLKO.1 1423 CDS 100% 2.640 3.696 N Pan3 n/a
3 TRCN0000120026 GCGGAGTGTGAATGACATCAT pLKO.1 2719 CDS 100% 4.950 3.960 N Pan3 n/a
4 TRCN0000423444 CAAGCAGATCTGATATCATTA pLKO_005 2552 CDS 100% 13.200 9.240 N PAN3 n/a
5 TRCN0000120022 CCAGTCACATACACTTATCTT pLKO.1 3241 3UTR 100% 5.625 3.938 N Pan3 n/a
6 TRCN0000120024 GCTGCTCAAATGAGAAATGAT pLKO.1 2777 CDS 100% 5.625 3.938 N Pan3 n/a
7 TRCN0000120023 GCCACGATCTTCTGACTTCAT pLKO.1 1116 CDS 100% 4.950 3.465 N Pan3 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_006504871.3, 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_13473 pDONR223 100% 58.8% 62.3% None (many diffs) n/a
2 ccsbBroad304_13473 pLX_304 0% 58.8% 62.3% V5 (many diffs) n/a
3 TRCN0000481456 TACGCTTACCACCTCCCGTTTTAT pLX_317 25.7% 58.8% 62.3% V5 (many diffs) n/a
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