Transcript: Mouse XM_006526178.3

PREDICTED: Mus musculus CXXC finger 5 (Cxxc5), transcript variant X3, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Cxxc5 (67393)
Length:
2731
CDS:
784..1737

Additional Resources:

NCBI RefSeq record:
XM_006526178.3
NBCI Gene record:
Cxxc5 (67393)

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_006526178.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000322520 GTCGGAACAAGAGCGGTATCA pLKO_005 953 CDS 100% 4.950 6.930 N Cxxc5 n/a
2 TRCN0000139977 GACTGGCCATCAGATTTGCAA pLKO.1 1623 CDS 100% 3.000 4.200 N CXXC5 n/a
3 TRCN0000219528 TGGCCATCAGATTTGCAAATT pLKO.1 1626 CDS 100% 13.200 10.560 N Cxxc5 n/a
4 TRCN0000322518 TGGCCATCAGATTTGCAAATT pLKO_005 1626 CDS 100% 13.200 10.560 N Cxxc5 n/a
5 TRCN0000219527 CCTATTGGCCAATGGTCATGA pLKO.1 1107 CDS 100% 4.950 3.960 N Cxxc5 n/a
6 TRCN0000322450 TCTCCACGTCCCTAGTATAAA pLKO_005 1918 3UTR 100% 15.000 10.500 N Cxxc5 n/a
7 TRCN0000143369 GAAAGACTGGCCATCAGATTT pLKO.1 1619 CDS 100% 13.200 9.240 N CXXC5 n/a
8 TRCN0000443009 ATTCTCTCACAGATTTCATTC pLKO_005 1857 3UTR 100% 10.800 7.560 N CXXC5 n/a
9 TRCN0000322521 TCCGGTGGTTTCAGTGATTTC pLKO_005 1721 CDS 100% 10.800 7.560 N Cxxc5 n/a
10 TRCN0000219526 TCGGAACAAGAGCGGTATCAT pLKO.1 954 CDS 100% 5.625 3.938 N Cxxc5 n/a
11 TRCN0000193084 CCAACCATGAAATAGTGCATA pLKO.1 2229 3UTR 100% 4.950 3.465 N Cxxc5 n/a
12 TRCN0000139498 CCTGGGCAAAGAATGGACAAT pLKO.1 2035 3UTR 100% 4.950 3.465 N CXXC5 n/a
13 TRCN0000322519 GCAGTTGTAGGAACCGAAAGA pLKO_005 1604 CDS 100% 4.950 3.465 N Cxxc5 n/a
14 TRCN0000454536 GCTCTGGAGAAGGTGATGCTT pLKO_005 1684 CDS 100% 3.000 2.100 N CXXC5 n/a
15 TRCN0000122415 GAAGCGGAAACGCTGCGGCAT pLKO.1 1542 CDS 100% 0.000 0.000 N CXXC5 n/a
16 TRCN0000219529 TTCCGGTGGTTTCAGTGATTT pLKO.1 1720 CDS 100% 13.200 7.920 N Cxxc5 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_006526178.3, 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_03325 pDONR223 98.7% 89.5% 93.5% None (many diffs) n/a
2 ccsbBroad304_03325 pLX_304 0% 89.5% 93.5% V5 (not translated due to prior stop codon) (many diffs) n/a
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