Transcript: Mouse XM_011238947.1

PREDICTED: Mus musculus DnaJ heat shock protein family (Hsp40) member C1 (Dnajc1), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Dnajc1 (13418)
Length:
5005
CDS:
589..1497

Additional Resources:

NCBI RefSeq record:
XM_011238947.1
NBCI Gene record:
Dnajc1 (13418)

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_011238947.1, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000022308 GCATATCGTAAGCTTTCACTA pLKO.1 167 5UTR 100% 4.950 6.930 N DNAJC1 n/a
2 TRCN0000280286 GCATATCGTAAGCTTTCACTA pLKO_005 167 5UTR 100% 4.950 6.930 N DNAJC1 n/a
3 TRCN0000008542 GCAGTTGAACTTCTACGAGTT pLKO.1 103 5UTR 100% 4.050 5.670 N Dnajc1 n/a
4 TRCN0000274523 GCAGTTGAACTTCTACGAGTT pLKO_005 103 5UTR 100% 4.050 5.670 N Dnajc1 n/a
5 TRCN0000274471 GAACGAAAGATTGCTTATAAA pLKO_005 544 5UTR 100% 15.000 10.500 N Dnajc1 n/a
6 TRCN0000273751 ACTGACAAGAAGTATGGTTAA pLKO_005 843 CDS 100% 10.800 7.560 N Dnajc1 n/a
7 TRCN0000008543 CCTGTGTATATGCCTTTAGAA pLKO.1 688 CDS 100% 5.625 3.938 N Dnajc1 n/a
8 TRCN0000274469 CCTGTGTATATGCCTTTAGAA pLKO_005 688 CDS 100% 5.625 3.938 N Dnajc1 n/a
9 TRCN0000008540 CCAGACAAGAATAAAGATGAA pLKO.1 197 5UTR 100% 4.950 3.465 N Dnajc1 n/a
10 TRCN0000008541 GCTAGATACAAGCTGCTGGTT pLKO.1 1441 CDS 100% 2.640 1.848 N Dnajc1 n/a
11 TRCN0000274470 GCTAGATACAAGCTGCTGGTT pLKO_005 1441 CDS 100% 2.640 1.848 N Dnajc1 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_011238947.1, 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_12460 pDONR223 100% 75.6% 69.7% None (many diffs) n/a
2 ccsbBroad304_12460 pLX_304 0% 75.6% 69.7% V5 (many diffs) n/a
3 TRCN0000465875 TCTCCACTCTCTTGAGCCTGCTCG pLX_317 14.7% 75.6% 69.7% V5 (many diffs) n/a
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