Transcript: Mouse XM_006538169.3

PREDICTED: Mus musculus aprataxin (Aptx), transcript variant X6, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Aptx (66408)
Length:
5520
CDS:
32..1039

Additional Resources:

NCBI RefSeq record:
XM_006538169.3
NBCI Gene record:
Aptx (66408)

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_006538169.3, 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 TRCN0000193867 CGTACACTTCTTCGAAACAAA pLKO.1 1115 3UTR 100% 5.625 7.875 N Aptx n/a
2 TRCN0000193453 GAATACTTTCTGGAATCACAA pLKO.1 863 CDS 100% 4.950 6.930 N Aptx n/a
3 TRCN0000175948 GTGTAACAAGGGATATGTCAA pLKO.1 178 CDS 100% 4.950 6.930 N Aptx n/a
4 TRCN0000173662 CCTGAACTAAAGCGTACACTT pLKO.1 1103 3UTR 100% 4.950 3.960 N Aptx n/a
5 TRCN0000217012 CCACATGGTGAATGGACTTTA pLKO.1 289 CDS 100% 13.200 9.240 N Aptx n/a
6 TRCN0000216145 CCTTGAACTTCTCAAACATAT pLKO.1 670 CDS 100% 13.200 9.240 N Aptx n/a
7 TRCN0000294491 TTTGATTCTCCTTGCCTTAAA pLKO_005 812 CDS 100% 13.200 9.240 N APTX n/a
8 TRCN0000173141 CCACGTACATCTTCATGTGAT pLKO.1 781 CDS 100% 4.950 3.465 N Aptx n/a
9 TRCN0000173289 GTCAAGGCTTGAAGATGTCTA pLKO.1 513 CDS 100% 4.950 3.465 N Aptx n/a
10 TRCN0000216785 GGAGAAGGTGATAGCAGATTT pLKO.1 703 CDS 100% 13.200 7.920 N Aptx n/a
11 TRCN0000166364 CACACACACACACACACACAA pLKO.1 3543 3UTR 100% 4.950 2.475 Y KAAG1 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_006538169.3, 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_14172 pDONR223 100% 63.7% 61.5% None (many diffs) n/a
2 ccsbBroad304_14172 pLX_304 0% 63.7% 61.5% V5 (many diffs) n/a
3 TRCN0000491624 TCTACGATTCAACTCATTTGGCAA pLX_317 25.7% 63.7% 61.5% V5 (many diffs) n/a
4 ccsbBroadEn_12096 pDONR223 100% 44.3% 45.6% None (many diffs) n/a
5 ccsbBroad304_12096 pLX_304 0% 44.3% 45.6% V5 (many diffs) n/a
6 TRCN0000474041 TACTATTTGCTAATCACCCATCGA pLX_317 76.3% 44.3% 45.6% V5 (many diffs) n/a
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