Transcript: Mouse XM_011245124.2

PREDICTED: Mus musculus bridging integrator 3 (Bin3), transcript variant X4, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Bin3 (57784)
Length:
1392
CDS:
318..713

Additional Resources:

NCBI RefSeq record:
XM_011245124.2
NBCI Gene record:
Bin3 (57784)

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_011245124.2, 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 TRCN0000184322 GCAAACTAAACGCCTGCAGAA pLKO.1 51 5UTR 100% 4.050 5.670 N Bin3 n/a
2 TRCN0000337751 GACTTTGAGGCCAAGAATAAA pLKO_005 462 CDS 100% 15.000 10.500 N Bin3 n/a
3 TRCN0000337752 GATCCGGGCACAGGTTATATA pLKO_005 554 CDS 100% 15.000 10.500 N Bin3 n/a
4 TRCN0000375402 CAGAAATGCATAAGATCTTTG pLKO_005 580 CDS 100% 10.800 7.560 N Bin3 n/a
5 TRCN0000375403 CCCTAGACACAGCCATGAAAC pLKO_005 194 5UTR 100% 10.800 7.560 N Bin3 n/a
6 TRCN0000180916 GAAGACTTTGAGGCCAAGAAT pLKO.1 459 CDS 100% 5.625 3.938 N Bin3 n/a
7 TRCN0000180820 GCTGTCCACTAGGAAATGTTA pLKO.1 1260 3UTR 100% 5.625 3.938 N Bin3 n/a
8 TRCN0000337750 GCTGTCCACTAGGAAATGTTA pLKO_005 1260 3UTR 100% 5.625 3.938 N Bin3 n/a
9 TRCN0000184032 CCTTGCCAGTTCTCTGACTTA pLKO.1 845 3UTR 100% 4.950 2.970 N Bin3 n/a
10 TRCN0000337749 CCTTGCCAGTTCTCTGACTTA pLKO_005 845 3UTR 100% 4.950 2.970 N Bin3 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_011245124.2, 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_12289 pDONR223 100% 58.1% 62.3% None (many diffs) n/a
2 ccsbBroad304_12289 pLX_304 0% 58.1% 62.3% V5 (many diffs) n/a
3 TRCN0000472704 ACTGATTACGTGAACTTCATCCAC pLX_317 79.4% 58.1% 62.3% V5 (many diffs) n/a
4 ccsbBroadEn_08609 pDONR223 100% 45.8% 49% None (many diffs) n/a
5 ccsbBroad304_08609 pLX_304 0% 45.8% 49% V5 (many diffs) n/a
6 TRCN0000468069 CCTTACAGGTTCCCTTATCCAGAA pLX_317 1.7% 45.8% 49% V5 (many diffs) n/a
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