Transcript: Human XM_005247903.4

PREDICTED: Homo sapiens 2-phosphoxylose phosphatase 1 (PXYLP1), transcript variant X2, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PXYLP1 (92370)
Length:
3372
CDS:
544..1935

Additional Resources:

NCBI RefSeq record:
XM_005247903.4
NBCI Gene record:
PXYLP1 (92370)

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_005247903.4, 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 TRCN0000052900 CCCGGTAAGAAACCAGTATCT pLKO.1 1233 CDS 100% 4.950 6.930 N PXYLP1 n/a
2 TRCN0000307796 CCCGGTAAGAAACCAGTATCT pLKO_005 1233 CDS 100% 4.950 6.930 N PXYLP1 n/a
3 TRCN0000052902 GTAGCAAGAGTCGAAAGAGAA pLKO.1 611 CDS 100% 4.950 6.930 N PXYLP1 n/a
4 TRCN0000307799 GTAGCAAGAGTCGAAAGAGAA pLKO_005 611 CDS 100% 4.950 6.930 N PXYLP1 n/a
5 TRCN0000303369 TACTAAGGGTAGAAGATTATT pLKO_005 2012 3UTR 100% 15.000 10.500 N PXYLP1 n/a
6 TRCN0000380131 AGAGGAATAGAAGGTACTTTA pLKO_005 2146 3UTR 100% 13.200 9.240 N PXYLP1 n/a
7 TRCN0000052898 CCACTGTATGTCATTCCCAAA pLKO.1 796 CDS 100% 4.050 2.835 N PXYLP1 n/a
8 TRCN0000291898 CCACTGTATGTCATTCCCAAA pLKO_005 796 CDS 100% 4.050 2.835 N PXYLP1 n/a
9 TRCN0000052899 GCCAGGTTGATCTTTGAGCTT pLKO.1 1693 CDS 100% 2.640 1.848 N PXYLP1 n/a
10 TRCN0000052901 GAAGAAATTGTACTTCGGGTA pLKO.1 1503 CDS 100% 2.160 1.512 N PXYLP1 n/a
11 TRCN0000291897 GAAGAAATTGTACTTCGGGTA pLKO_005 1503 CDS 100% 2.160 1.512 N PXYLP1 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_005247903.4, 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_09340 pDONR223 100% 95.1% 95.2% None (many diffs) n/a
2 ccsbBroad304_09340 pLX_304 0% 95.1% 95.2% V5 (many diffs) n/a
3 TRCN0000477458 TTGTCATACCGCACTTCGCCCATC pLX_317 24.5% 95.1% 95.2% V5 (many diffs) n/a
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