Transcript: Human XM_011530954.3

PREDICTED: Homo sapiens XK related X-linked (XKRX), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
XKRX (402415)
Length:
4659
CDS:
1660..2805

Additional Resources:

NCBI RefSeq record:
XM_011530954.3
NBCI Gene record:
XKRX (402415)

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_011530954.3, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000455043 ATCACCATCTGGCGGACATTG pLKO_005 2425 CDS 100% 10.800 15.120 N XKRX n/a
2 TRCN0000158107 CCTGGGTAGAGTTGTGCTAAT pLKO.1 2292 CDS 100% 10.800 15.120 N XKRX n/a
3 TRCN0000157405 GACAGAGATCTCGTCGACAAA pLKO.1 2704 CDS 100% 4.950 6.930 N XKRX n/a
4 TRCN0000153422 GCTATCCAGATCAAGTACGAT pLKO.1 2365 CDS 100% 3.000 4.200 N XKRX n/a
5 TRCN0000434791 AGATAAACCGCTATCATTATT pLKO_005 1980 CDS 100% 15.000 10.500 N XKRX n/a
6 TRCN0000153971 CACCCGAAAGAAGATGCTAAT pLKO.1 2106 CDS 100% 10.800 7.560 N XKRX n/a
7 TRCN0000421813 TGCACCGCAATGCCTACAAAC pLKO_005 2186 CDS 100% 10.800 7.560 N XKRX n/a
8 TRCN0000156478 CCTCGACAATGGACAGAGTTT pLKO.1 1691 CDS 100% 4.950 3.465 N XKRX n/a
9 TRCN0000235095 ATATTTGTTGGTGGCATTAAA pLKO_005 3305 3UTR 100% 15.000 7.500 Y HNRNPA1 n/a
10 TRCN0000235099 GACCTGAAGTTCACCATTAAA pLKO_005 4462 3UTR 100% 15.000 7.500 Y HNRNPA1 n/a
11 TRCN0000240128 GACTGTATTTGTGACTAATTG pLKO_005 4110 3UTR 100% 13.200 6.600 Y HNRNPA1P35 n/a
12 TRCN0000313631 GACTGTATTTGTGACTAATTG pLKO_005 4110 3UTR 100% 13.200 6.600 Y Hnrnpa1 n/a
13 TRCN0000241551 GATATTTGTTGGTGGCATTAA pLKO_005 3304 3UTR 100% 13.200 6.600 Y HNRNPA1L2 n/a
14 TRCN0000006582 GCCAGGTTCTATTTGGAATTT pLKO.1 4366 3UTR 100% 13.200 6.600 Y HNRNPA1 n/a
15 TRCN0000377199 GTCTGATCGTGACGCTGAATA pLKO_005 4243 3UTR 100% 13.200 6.600 Y HNRNPA1 n/a
16 TRCN0000241555 TGGTGGAAGCTACAATGATTT pLKO_005 3749 3UTR 100% 13.200 6.600 Y HNRNPA1L2 n/a
17 TRCN0000006586 AGATATTTGTTGGTGGCATTA pLKO.1 3303 3UTR 100% 10.800 5.400 Y HNRNPA1 n/a
18 TRCN0000293274 AGATATTTGTTGGTGGCATTA pLKO_005 3303 3UTR 100% 10.800 5.400 Y HNRNPA1 n/a
19 TRCN0000368907 GCTATAATGGATTTGGTAATG pLKO_005 3710 3UTR 100% 10.800 5.400 Y HNRNPA1 n/a
20 TRCN0000240127 GGCTATAATGGATTTGGTAAT pLKO_005 3709 3UTR 100% 10.800 5.400 Y HNRNPA1P35 n/a
21 TRCN0000148048 GAGGACTGTATTTGTGACTAA pLKO.1 4107 3UTR 100% 4.950 2.475 Y HNRNPA1L2 n/a
22 TRCN0000110826 GCTTTGTACATGGTTAGAATT pLKO.1 1849 CDS 100% 0.000 0.000 N Xkrx n/a
23 TRCN0000006583 GCCACAACTGTGAAGTTAGAA pLKO.1 3497 3UTR 100% 5.625 2.813 Y HNRNPA1 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_011530954.3, 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_10137 pDONR223 100% 81.3% 78.7% None (many diffs) n/a
2 ccsbBroad304_10137 pLX_304 0% 81.3% 78.7% V5 (many diffs) n/a
3 TRCN0000476356 ACCTAACCGTGAAGTCACCGCACC pLX_317 24.4% 81.3% 78.7% V5 (many diffs) n/a
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