Transcript: Mouse XM_011239156.2

PREDICTED: Mus musculus bromodomain containing 3 (Brd3), transcript variant X4, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Brd3 (67382)
Length:
5699
CDS:
579..2810

Additional Resources:

NCBI RefSeq record:
XM_011239156.2
NBCI Gene record:
Brd3 (67382)

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_011239156.2, 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 TRCN0000304751 CCGGTTAATGTTCTCGAATTG pLKO_005 1715 CDS 100% 10.800 15.120 N Brd3 n/a
2 TRCN0000021378 GAGATATGTCAAGTCTTGTTT pLKO.1 2522 CDS 100% 5.625 7.875 N BRD3 n/a
3 TRCN0000078850 GCGACAACTTAGCCTTGACAT pLKO.1 2363 CDS 100% 4.950 6.930 N Brd3 n/a
4 TRCN0000331831 GCGACAACTTAGCCTTGACAT pLKO_005 2363 CDS 100% 4.950 6.930 N Brd3 n/a
5 TRCN0000304695 GAAGCTTTGCAAGGGTGTTTC pLKO_005 3155 3UTR 100% 10.800 7.560 N Brd3 n/a
6 TRCN0000078849 CCACAGATGATATAGTGCTAA pLKO.1 928 CDS 100% 4.950 3.465 N Brd3 n/a
7 TRCN0000302334 CCACAGATGATATAGTGCTAA pLKO_005 928 CDS 100% 4.950 3.465 N Brd3 n/a
8 TRCN0000078848 CCTCTCCCTTAGTAACTTGAA pLKO.1 3133 3UTR 100% 4.950 3.465 N Brd3 n/a
9 TRCN0000078851 GCTGCATGACTACCATGACAT pLKO.1 1607 CDS 100% 4.950 3.465 N Brd3 n/a
10 TRCN0000304696 AGCTGAACCTGCCTGATTATC pLKO_005 775 CDS 100% 13.200 7.920 N Brd3 n/a
11 TRCN0000078852 CACAGATGATATAGTGCTAAT pLKO.1 929 CDS 100% 10.800 6.480 N Brd3 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_011239156.2, 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_11251 pDONR223 100% 65.3% 70.5% None (many diffs) n/a
2 ccsbBroad304_11251 pLX_304 0% 65.3% 70.5% V5 (many diffs) n/a
3 TRCN0000478055 CGGTGGTTACGTATCGCTACCCCC pLX_317 19.6% 65.3% 70.5% V5 (many diffs) n/a
4 ccsbBroadEn_14888 pDONR223 93.2% 65% 30.9% None (many diffs) n/a
5 ccsbBroad304_14888 pLX_304 0% 65% 30.9% V5 (not translated due to prior stop codon) (many diffs) n/a
6 TRCN0000473067 TGACGGGCAGCCGACGCTAGCAGT pLX_317 19.6% 65% 30.9% V5 (not translated due to prior stop codon) (many diffs) n/a
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