Transcript: Human XM_017007596.1

PREDICTED: Homo sapiens xylulokinase (XYLB), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
XYLB (9942)
Length:
2850
CDS:
334..2607

Additional Resources:

NCBI RefSeq record:
XM_017007596.1
NBCI Gene record:
XYLB (9942)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001162220 TGGGTTTCCCAACAGCAACA pXPR_003 CGG 95 4% 5 0.3442 XYLB XYLB 77648
2 BRDN0001162566 CCGTATGTGAGTAGGCCTCG pXPR_003 GGG 356 16% 7 0.2741 XYLB XYLB 77647
3 BRDN0001146908 AACGGGATACAGACTCGTTG pXPR_003 CGG 845 37% 13 -0.0777 XYLB XYLB 77649
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Human XM_017007596.1, 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 TRCN0000037932 GCCAGCAACACGGAAGTATAT pLKO.1 422 CDS 100% 13.200 18.480 N XYLB n/a
2 TRCN0000194902 CGTCATAGGTTTAACACAGAA pLKO.1 1300 CDS 100% 4.950 6.930 N XYLB n/a
3 TRCN0000037929 CGAGCACTAATTGAAGGACAA pLKO.1 1360 CDS 100% 4.050 5.670 N XYLB n/a
4 TRCN0000194852 CCGGTGTATGTTATAGACACT pLKO.1 1510 CDS 100% 2.640 3.696 N XYLB n/a
5 TRCN0000438011 GCAGGCACTGACAAGCTTATC pLKO_005 462 CDS 100% 10.800 8.640 N XYLB n/a
6 TRCN0000037933 GTTGTGAAGTTAGCTCCAAAT pLKO.1 1609 CDS 100% 10.800 8.640 N XYLB n/a
7 TRCN0000196999 GTGGAGGTTCGAGCACTAATT pLKO.1 1351 CDS 100% 13.200 9.240 N XYLB n/a
8 TRCN0000444928 CTCAGTTGTGGGAGCCATTTC pLKO_005 891 CDS 100% 10.800 7.560 N XYLB n/a
9 TRCN0000440012 TACGTCCAGCGCTACGGATTT pLKO_005 919 CDS 100% 10.800 7.560 N XYLB n/a
10 TRCN0000037930 GCAGAGTTGAATGTCTTCTAT pLKO.1 214 5UTR 100% 5.625 3.938 N XYLB n/a
11 TRCN0000416217 CCTACTCACATACGGAGAGAA pLKO_005 692 CDS 100% 4.950 3.465 N XYLB n/a
12 TRCN0000037931 CCTGAAATTATTGGACGTCAT pLKO.1 1285 CDS 100% 4.050 2.835 N XYLB 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_017007596.1, 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_14948 pDONR223 0% 47.9% 47.2% None (many diffs) n/a
2 ccsbBroad304_14948 pLX_304 0% 47.9% 47.2% V5 (many diffs) n/a
3 TRCN0000471651 GACTCCCGATTGTTCTTCAGTTCC pLX_317 31% 47.9% 47.2% V5 (many diffs) n/a
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