Transcript: Human XM_011517938.2

PREDICTED: Homo sapiens aprataxin (APTX), transcript variant X20, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
APTX (54840)
Length:
1972
CDS:
323..1087

Additional Resources:

NCBI RefSeq record:
XM_011517938.2
NBCI Gene record:
APTX (54840)

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 Human XM_011517938.2, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000083638 GCTGGTTATACATTTCTGTTT pLKO.1 1414 3UTR 100% 4.950 6.930 N APTX n/a
2 TRCN0000083640 CGTTACCATTGGCTGGTCTTA pLKO.1 653 CDS 100% 4.950 3.960 N APTX n/a
3 TRCN0000294490 CTTGTGAACTTCTACTCATTT pLKO_005 1158 3UTR 100% 13.200 9.240 N APTX n/a
4 TRCN0000294491 TTTGATTCTCCTTGCCTTAAA pLKO_005 860 CDS 100% 13.200 9.240 N APTX n/a
5 TRCN0000294489 GAACACCTTGAACTCCTTAAG pLKO_005 713 CDS 100% 10.800 7.560 N APTX n/a
6 TRCN0000083641 CCGAGTATGAGCCATGTACAT pLKO.1 818 CDS 100% 4.950 3.465 N APTX n/a
7 TRCN0000083639 GCTGTGATCGAGATGGTACAA pLKO.1 932 CDS 100% 4.950 3.465 N APTX n/a
8 TRCN0000083642 GTGGTGGTGATAAAGGATAAA pLKO.1 620 CDS 100% 13.200 7.920 N APTX n/a
9 TRCN0000291579 GTGGTGGTGATAAAGGATAAA pLKO_005 620 CDS 100% 13.200 7.920 N APTX 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_011517938.2, 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% 100% 100% None n/a
2 ccsbBroad304_14172 pLX_304 0% 100% 100% V5 n/a
3 TRCN0000491624 TCTACGATTCAACTCATTTGGCAA pLX_317 25.7% 100% 100% V5 n/a
4 ccsbBroadEn_12096 pDONR223 100% 66.1% 66.1% None 1_258del n/a
5 ccsbBroad304_12096 pLX_304 0% 66.1% 66.1% V5 1_258del n/a
6 TRCN0000474041 TACTATTTGCTAATCACCCATCGA pLX_317 76.3% 66.1% 66.1% V5 1_258del n/a
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