Transcript: Mouse XR_383836.3

PREDICTED: Mus musculus C1q and tumor necrosis factor related protein 3 (C1qtnf3), transcript variant X1, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
C1qtnf3 (81799)
Length:
2328
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_383836.3
NBCI Gene record:
C1qtnf3 (81799)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 XR_383836.3, 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 TRCN0000257572 GAAGTGTATGTGTACCTTATG pLKO_005 1088 3UTR 100% 10.800 15.120 N C1qtnf3 n/a
2 TRCN0000371572 GAAGTGTATGTGTACCTTATG pLKO_005 1088 3UTR 100% 10.800 15.120 N C1QTNF3 n/a
3 TRCN0000179904 CCCACTTACTAGACTCTACAT pLKO.1 1778 3UTR 100% 4.950 3.960 N C1qtnf3 n/a
4 TRCN0000246739 CAATCAGAACAGTGGCATTAT pLKO_005 946 3UTR 100% 13.200 9.240 N C1qtnf3 n/a
5 TRCN0000216761 GATGTCATGACTGGGAGATTT pLKO.1 1004 3UTR 100% 13.200 9.240 N C1qtnf3 n/a
6 TRCN0000257548 TTGCCTGTGTCAAGATGAATA pLKO_005 397 3UTR 100% 13.200 9.240 N C1qtnf3 n/a
7 TRCN0000179273 GCAATCAGAACAGTGGCATTA pLKO.1 945 3UTR 100% 10.800 7.560 N C1qtnf3 n/a
8 TRCN0000143629 GCCTGTGTCAAGATGAATACA pLKO.1 399 3UTR 100% 5.625 3.938 N C1QTNF3 n/a
9 TRCN0000183445 GCTGATATAGTACAGAAGTTA pLKO.1 2119 3UTR 100% 5.625 3.938 N C1qtnf3 n/a
10 TRCN0000142890 CAACACAGTCTTCAGCATGTA pLKO.1 1117 3UTR 100% 4.950 3.465 N C1QTNF3 n/a
11 TRCN0000257556 AGTGTTGCCATGGAGATTATG pLKO_005 681 3UTR 100% 13.200 7.920 N C1qtnf3 n/a
12 TRCN0000142944 CCAGGAAACCATGGAAACAAT pLKO.1 752 3UTR 100% 5.625 3.375 N C1QTNF3 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 XR_383836.3, 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_04667 pDONR223 100% 37.3% None (many diffs) n/a
2 ccsbBroad304_04667 pLX_304 0% 37.3% V5 (many diffs) n/a
3 TRCN0000468020 CCTTCGTACCCTAACCATAAATCC pLX_317 37.8% 37.3% V5 (many diffs) n/a
4 ccsbBroadEn_13044 pDONR223 100% 14.9% None (many diffs) n/a
5 ccsbBroad304_13044 pLX_304 0% 14.9% V5 (many diffs) n/a
6 TRCN0000468749 CTACTTATAAACTAGTATTAAAAT pLX_317 100% 14.9% V5 (many diffs) n/a
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