Transcript: Mouse XM_006516536.2

PREDICTED: Mus musculus chromodomain protein, Y chromosome-like (Cdyl), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Cdyl (12593)
Length:
3662
CDS:
559..2268

Additional Resources:

NCBI RefSeq record:
XM_006516536.2
NBCI Gene record:
Cdyl (12593)

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 Mouse XM_006516536.2, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000305019 TGGAAACATCCGAGCTATTTA pLKO_005 2345 3UTR 100% 15.000 21.000 N Cdyl n/a
2 TRCN0000126134 CGAGTGTTACTTGCTAAGTTA pLKO.1 2952 3UTR 100% 5.625 7.875 N Cdyl n/a
3 TRCN0000126137 CGTGAATACTTTCATTCAGTT pLKO.1 1761 CDS 100% 0.495 0.693 N Cdyl n/a
4 TRCN0000308421 CGTGAATACTTTCATTCAGTT pLKO_005 1761 CDS 100% 0.495 0.693 N Cdyl n/a
5 TRCN0000126136 CGTCAGAGAATAACTCACTAA pLKO.1 1553 CDS 100% 4.950 3.960 N Cdyl n/a
6 TRCN0000308422 CGTCAGAGAATAACTCACTAA pLKO_005 1553 CDS 100% 4.950 3.960 N Cdyl n/a
7 TRCN0000126135 CCGTTATGTTTCCCAAGATTA pLKO.1 1931 CDS 100% 13.200 9.240 N Cdyl n/a
8 TRCN0000380240 CTATCAGAAACTTCGTGAATA pLKO_005 1748 CDS 100% 13.200 9.240 N CDYL n/a
9 TRCN0000130319 GCTGGGTGAGAAATACTACTT pLKO.1 3046 3UTR 100% 4.950 3.465 N CDYL n/a
10 TRCN0000126138 GCTTGGTTTCAAACACCCTAT pLKO.1 1876 CDS 100% 4.050 2.835 N Cdyl n/a
11 TRCN0000308353 GCTTGGTTTCAAACACCCTAT pLKO_005 1876 CDS 100% 4.050 2.835 N Cdyl 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_006516536.2, 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_11367 pDONR223 100% 48.8% 52.7% None (many diffs) n/a
2 ccsbBroad304_11367 pLX_304 0% 48.8% 52.7% V5 (many diffs) n/a
3 TRCN0000481143 ATAAGGACCTCTTAAGTGCTCTAA pLX_317 44.9% 48.8% 52.7% V5 (many diffs) n/a
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