Transcript: Mouse XM_006507488.3

PREDICTED: Mus musculus ClpB caseinolytic peptidase B (Clpb), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Clpb (20480)
Length:
5310
CDS:
219..2342

Additional Resources:

NCBI RefSeq record:
XM_006507488.3
NBCI Gene record:
Clpb (20480)

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_006507488.3, 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 TRCN0000419827 AGTTTCTGGGACGGATCAATG pLKO_005 1888 CDS 100% 10.800 15.120 N CLPB n/a
2 TRCN0000079446 GCCGAAATCGAATCGCTGAAA pLKO.1 1768 CDS 100% 4.950 6.930 N Clpb n/a
3 TRCN0000312341 GCCGAAATCGAATCGCTGAAA pLKO_005 1768 CDS 100% 4.950 6.930 N Clpb n/a
4 TRCN0000079447 CGGGCCAATAACGTGCAGGAA pLKO.1 645 CDS 100% 0.880 1.232 N Clpb n/a
5 TRCN0000313304 TCGGCTCTTCCTAGGGTTAAT pLKO_005 260 CDS 100% 13.200 10.560 N Clpb n/a
6 TRCN0000313305 ACTATGGTGCCCGCTCCATTA pLKO_005 2065 CDS 100% 10.800 8.640 N Clpb n/a
7 TRCN0000079445 GCAAAGTATATGCACAAAGAT pLKO.1 1401 CDS 100% 5.625 4.500 N Clpb n/a
8 TRCN0000313367 GACTTCAACAACCGGCTAAAT pLKO_005 975 CDS 100% 13.200 9.240 N Clpb n/a
9 TRCN0000417752 CAGAAGGTGCAGATGTCAATG pLKO_005 682 CDS 100% 10.800 7.560 N CLPB n/a
10 TRCN0000079443 GCCCATGTATTCTGTGGTTAT pLKO.1 4530 3UTR 100% 10.800 7.560 N Clpb n/a
11 TRCN0000313303 TCTTGGTTGTGAGGTTCATAG pLKO_005 2453 3UTR 100% 10.800 7.560 N Clpb n/a
12 TRCN0000079444 CGCTCCATTAAGCATGAGGTA pLKO.1 2076 CDS 100% 2.640 1.848 N Clpb n/a
13 TRCN0000104237 CCTCGGGCACTCAAAGAAATT pLKO.1 5251 3UTR 100% 13.200 6.600 Y Rpl31 n/a
14 TRCN0000075039 CCGAGAATACACCATCAACAT pLKO.1 5190 3UTR 100% 4.950 2.475 Y RPL31 n/a
15 TRCN0000104239 CGGAAGTTTGCCATGAAGGAA pLKO.1 5272 3UTR 100% 3.000 1.500 Y Rpl31 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_006507488.3, 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_04240 pDONR223 100% 86% 87.8% None (many diffs) n/a
2 ccsbBroad304_04240 pLX_304 0% 86% 87.8% V5 (many diffs) n/a
3 ccsbBroadEn_12720 pDONR223 100% 38.6% 41.7% None (many diffs) n/a
4 ccsbBroad304_12720 pLX_304 0% 38.6% 41.7% V5 (many diffs) n/a
5 TRCN0000471996 CCAGGTTCTCTACGCCAGAAACAA pLX_317 38.3% 38.6% 41.7% V5 (many diffs) n/a
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