Transcript: Mouse XM_011239206.3

PREDICTED: Mus musculus uridine phosphorylase 2 (Upp2), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-08-08
Taxon:
Mus musculus (mouse)
Gene:
Upp2 (76654)
Length:
2624
CDS:
37..1266

Additional Resources:

NCBI RefSeq record:
XM_011239206.3
NBCI Gene record:
Upp2 (76654)

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_011239206.3, 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 TRCN0000151632 GACATTCTCTATCACTTGGAT pLKO.1 535 CDS 100% 3.000 4.200 N UPP2 n/a
2 TRCN0000201101 CCACAGCTTCTAATCTCAAAT pLKO.1 1338 3UTR 100% 13.200 9.240 N Upp2 n/a
3 TRCN0000432908 GAGTTTCACATGCAGCATTAA pLKO_005 1656 3UTR 100% 13.200 9.240 N Upp2 n/a
4 TRCN0000201355 GACAGATACTGCATGTTCAAA pLKO.1 718 CDS 100% 5.625 3.938 N Upp2 n/a
5 TRCN0000192851 GCCATGTGTTGTTCATAACAT pLKO.1 1454 3UTR 100% 5.625 3.938 N Upp2 n/a
6 TRCN0000189959 GCTTGGACTTTGTGACCAGAT pLKO.1 1373 3UTR 100% 4.050 2.835 N Upp2 n/a
7 TRCN0000412643 TTTAATACTCATGCGAAATTC pLKO_005 1561 3UTR 100% 13.200 7.920 N Upp2 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_011239206.3, 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_05052 pDONR223 100% 52.6% 54% None (many diffs) n/a
2 ccsbBroad304_05052 pLX_304 0% 52.6% 54% V5 (many diffs) n/a
3 TRCN0000472567 ATTTTCGCTCTCGAAACGAACCTG pLX_317 42.4% 52.6% 54% V5 (many diffs) n/a
4 TRCN0000488047 TCCTAATAACTACGTCCAACTTTT pLX_317 29.9% 52.6% 53.9% V5 (many diffs) n/a
5 TRCN0000489731 AACCTTTGGGTAAACCGACGAGCC pLX_317 38.3% 52.3% 54% V5 (not translated due to prior stop codon) (many diffs) n/a
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