Transcript: Human XM_011513921.3

PREDICTED: Homo sapiens cadherin 6 (CDH6), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
CDH6 (1004)
Length:
4517
CDS:
180..2552

Additional Resources:

NCBI RefSeq record:
XM_011513921.3
NBCI Gene record:
CDH6 (1004)

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_011513921.3, 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 TRCN0000420052 CCTTCGAGCTCAAGCTATAAA pLKO_005 554 CDS 100% 15.000 21.000 N CDH6 n/a
2 TRCN0000422201 CCCAGAGTACATACCAGTTTA pLKO_005 985 CDS 100% 13.200 18.480 N CDH6 n/a
3 TRCN0000054113 GCGGGAATCTTAACTCGGAAA pLKO.1 1818 CDS 100% 4.050 5.670 N CDH6 n/a
4 TRCN0000424529 CACTGCTATGGCACAACATTA pLKO_005 1528 CDS 100% 13.200 10.560 N CDH6 n/a
5 TRCN0000054115 GCTGGATATGTTTGATGTCAT pLKO.1 1115 CDS 100% 4.950 3.960 N CDH6 n/a
6 TRCN0000054117 GCAGGAGATCTCTTCATTATT pLKO.1 468 CDS 100% 15.000 10.500 N CDH6 n/a
7 TRCN0000054116 GCCATAGAGGACAACAAATTA pLKO.1 2223 CDS 100% 15.000 10.500 N CDH6 n/a
8 TRCN0000054114 GCTCAGATAAACACCACAATA pLKO.1 1365 CDS 100% 13.200 9.240 N CDH6 n/a
9 TRCN0000430349 TCGGCTCACAAAGAGATAAAC pLKO_005 2984 3UTR 100% 13.200 9.240 N CDH6 n/a
10 TRCN0000094218 TGCTGAGTTCTATGAAACTTT pLKO.1 1643 CDS 100% 5.625 3.375 N Cdh6 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_011513921.3, 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_10724 pDONR223 100% 81.8% 79.7% None (many diffs) n/a
2 ccsbBroad304_10724 pLX_304 0% 81.8% 79.7% V5 (many diffs) n/a
3 TRCN0000467818 TCCAAAGTCTGGACCAAAGCTACC pLX_317 17.2% 81.8% 79.7% V5 (many diffs) n/a
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