Transcript: Mouse NM_001331219.1

Mus musculus ubiquitin protein ligase E3B (Ube3b), transcript variant 2, mRNA.

Source:
NCBI, updated 2017-06-10
Taxon:
Mus musculus (mouse)
Gene:
Ube3b (117146)
Length:
5095
CDS:
1064..3595

Additional Resources:

NCBI RefSeq record:
NM_001331219.1
NBCI Gene record:
Ube3b (117146)

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 NM_001331219.1, 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 TRCN0000040686 CCTCGATGACATTGAAGTTTA pLKO.1 2014 CDS 100% 13.200 18.480 N Ube3b n/a
2 TRCN0000040687 CGGCCTCAATGATTCCATGTA pLKO.1 1498 CDS 100% 4.950 3.960 N Ube3b n/a
3 TRCN0000040685 CCGGTTACAGATGAGAACAAA pLKO.1 2996 CDS 100% 5.625 3.938 N Ube3b n/a
4 TRCN0000040684 GCTGTGCTACTGTCAGAAGTA pLKO.1 1405 CDS 100% 4.950 3.465 N Ube3b n/a
5 TRCN0000040683 CGTCCTACATTCACGAGAATT pLKO.1 2679 CDS 100% 0.000 0.000 N Ube3b 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 NM_001331219.1, 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_09284 pDONR223 100% 68% 74.1% None (many diffs) n/a
2 ccsbBroad304_09284 pLX_304 0% 68% 74.1% V5 (many diffs) n/a
3 TRCN0000479398 ACTATTTAACACCTTAATACCCGG pLX_317 10.2% 68% 74.1% V5 (many diffs) n/a
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