Transcript: Mouse XR_377435.3

PREDICTED: Mus musculus BMS1, ribosome biogenesis factor (Bms1), transcript variant X2, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Bms1 (213895)
Length:
4821
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_377435.3
NBCI Gene record:
Bms1 (213895)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 XR_377435.3, 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 TRCN0000176711 CGACATTGAAAGTTTACTCAA pLKO.1 2692 3UTR 100% 4.950 6.930 N Bms1 n/a
2 TRCN0000297217 CGACATTGAAAGTTTACTCAA pLKO_005 2692 3UTR 100% 4.950 6.930 N Bms1 n/a
3 TRCN0000200428 GCGTTTGCTGATAGCGATGAT pLKO.1 2285 3UTR 100% 4.950 6.930 N Bms1 n/a
4 TRCN0000279433 GCGTTTGCTGATAGCGATGAT pLKO_005 2285 3UTR 100% 4.950 6.930 N Bms1 n/a
5 TRCN0000200262 CCATGCCAGTATCGATGCTAA pLKO.1 1909 3UTR 100% 4.950 3.960 N Bms1 n/a
6 TRCN0000279503 CCATGCCAGTATCGATGCTAA pLKO_005 1909 3UTR 100% 4.950 3.960 N Bms1 n/a
7 TRCN0000198548 GAGCACAATACACAGTCAGAA pLKO.1 4350 3UTR 100% 4.950 3.465 N Bms1 n/a
8 TRCN0000279505 GAGCACAATACACAGTCAGAA pLKO_005 4350 3UTR 100% 4.950 3.465 N Bms1 n/a
9 TRCN0000178470 GCATCTGGATAAGAAGAGAAA pLKO.1 3250 3UTR 100% 4.950 3.465 N Bms1 n/a
10 TRCN0000297666 GCATCTGGATAAGAAGAGAAA pLKO_005 3250 3UTR 100% 4.950 3.465 N Bms1 n/a
11 TRCN0000167923 CAATGGAAGACAAAGGCTTCT pLKO.1 3594 3UTR 100% 4.050 2.835 N BMS1P20 n/a
12 TRCN0000168108 CACAATGGAAGACAAAGGCTT pLKO.1 3592 3UTR 100% 2.640 1.848 N BMS1P20 n/a
13 TRCN0000168428 GAAGACCACAATGGAAGACAA pLKO.1 3586 3UTR 100% 4.950 2.970 N BMS1P20 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 XR_377435.3, 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_07487 pDONR223 100% 65.1% None (many diffs) n/a
2 ccsbBroad304_07487 pLX_304 0% 65.1% V5 (many diffs) n/a
3 TRCN0000480950 GACCCCTCCATCATAGCGCCCGAA pLX_317 10.1% 65.1% V5 (many diffs) n/a
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