Transcript: Human XM_005255144.3

PREDICTED: Homo sapiens chromosome 16 open reading frame 71 (C16orf71), transcript variant X3, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
C16orf71 (146562)
Length:
2435
CDS:
606..1754

Additional Resources:

NCBI RefSeq record:
XM_005255144.3
NBCI Gene record:
C16orf71 (146562)

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_005255144.3, 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 TRCN0000122614 GCAACTTGAAGCGTGGGATTT pLKO.1 974 CDS 100% 10.800 7.560 N C16orf71 n/a
2 TRCN0000140945 CCTTGGAAGCCTGTCTTTCAA pLKO.1 641 CDS 100% 5.625 3.938 N C16orf71 n/a
3 TRCN0000141326 CAGACAGAACACAAGGACAAA pLKO.1 509 5UTR 100% 4.950 3.465 N C16orf71 n/a
4 TRCN0000140804 GACACCAAAGAGGCAGATTCA pLKO.1 1206 CDS 100% 4.950 3.465 N C16orf71 n/a
5 TRCN0000142501 GAAGATGATAGAGACGGACAT pLKO.1 803 CDS 100% 4.050 2.835 N C16orf71 n/a
6 TRCN0000122615 GCAGACAGAACACAAGGACAA pLKO.1 508 5UTR 100% 4.050 2.835 N C16orf71 n/a
7 TRCN0000141424 CAGAACACAAGGACAAAGGAT pLKO.1 513 5UTR 100% 3.000 2.100 N C16orf71 n/a
8 TRCN0000141150 CAGAGAAATCATCACCACCTT pLKO.1 1796 3UTR 100% 2.640 1.848 N C16orf71 n/a
9 TRCN0000139990 GCAGAGAAATCATCACCACCT pLKO.1 1795 3UTR 100% 2.160 1.512 N C16orf71 n/a
10 TRCN0000140997 CAAGAAGACAACCAGGGAAAT pLKO.1 1023 CDS 100% 10.800 6.480 N C16orf71 n/a
11 TRCN0000141702 CAGGAGAGAAGGAAGATGATA pLKO.1 792 CDS 100% 5.625 3.375 N C16orf71 n/a
12 TRCN0000138985 CCAAAGAGGCAGATTCAGGAA pLKO.1 1210 CDS 100% 2.640 1.584 N C16orf71 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_005255144.3, 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_09630 pDONR223 100% 73.2% 72.8% None (many diffs) n/a
2 ccsbBroad304_09630 pLX_304 0% 73.2% 72.8% V5 (many diffs) n/a
3 TRCN0000466771 AACGTTTTGAGAATACGGCTCAAC pLX_317 27% 73% 72.6% V5 (many diffs) n/a
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