Transcript: Mouse XM_006522408.3

PREDICTED: Mus musculus zinc finger and BTB domain containing 20 (Zbtb20), transcript variant X19, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Zbtb20 (56490)
Length:
29527
CDS:
3441..5681

Additional Resources:

NCBI RefSeq record:
XM_006522408.3
NBCI Gene record:
Zbtb20 (56490)

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_006522408.3, 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 TRCN0000086328 GCCTGCTGGTACATTACATTT pLKO.1 5860 3UTR 100% 13.200 18.480 N Zbtb20 n/a
2 TRCN0000312807 GGGCTACAGCGACATCGAAAT pLKO_005 3860 CDS 100% 10.800 15.120 N Zbtb20 n/a
3 TRCN0000086330 CGGGTCATCTGATTGTGACAT pLKO.1 3641 CDS 100% 4.950 6.930 N Zbtb20 n/a
4 TRCN0000086329 GCCCAGCAAAGTTTGACCAAA pLKO.1 5614 CDS 100% 4.950 3.960 N Zbtb20 n/a
5 TRCN0000312851 AGCTATGGCACTAGAATTTAA pLKO_005 5759 3UTR 100% 15.000 10.500 N Zbtb20 n/a
6 TRCN0000222178 CCCAGCAAAGTTTGACCAAAT pLKO.1 5615 CDS 100% 10.800 7.560 N ZBTB20 n/a
7 TRCN0000312848 TGTCAGTAACAGCTCCGATAA pLKO_005 4796 CDS 100% 10.800 7.560 N Zbtb20 n/a
8 TRCN0000086331 GCCTTCAGTCAACACATCCAT pLKO.1 4832 CDS 100% 3.000 2.100 N Zbtb20 n/a
9 TRCN0000311870 GCCTTCAGTCAACACATCCAT pLKO_005 4832 CDS 100% 3.000 2.100 N Zbtb20 n/a
10 TRCN0000086332 CAGATCCTAGAACGCAATGAA pLKO.1 4491 CDS 100% 5.625 3.375 N Zbtb20 n/a
11 TRCN0000311807 CAGATCCTAGAACGCAATGAA pLKO_005 4491 CDS 100% 5.625 3.375 N Zbtb20 n/a
12 TRCN0000166364 CACACACACACACACACACAA pLKO.1 26270 3UTR 100% 4.950 2.475 Y KAAG1 n/a
13 TRCN0000178741 CACACACATACACACACACAA pLKO.1 6076 3UTR 100% 4.950 2.475 Y Cstad 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_006522408.3, 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_07993 pDONR223 100% 82.6% 87.3% None (many diffs) n/a
2 ccsbBroad304_07993 pLX_304 0% 82.6% 87.3% V5 (many diffs) n/a
3 TRCN0000476850 ACTACCACCCCAGAAATTGACATC pLX_317 19% 82.6% 87.3% V5 (many diffs) n/a
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