Transcript: Mouse XM_006534788.3

PREDICTED: Mus musculus BMP2 inducible kinase (Bmp2k), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Bmp2k (140780)
Length:
4609
CDS:
224..2365

Additional Resources:

NCBI RefSeq record:
XM_006534788.3
NBCI Gene record:
Bmp2k (140780)

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.

Clone ID Target Seq Vector PAM Seq Cut Position Cut % of CDS Length Exon On Target Score[?] Other Matching Genes Orig. Target Gene[?] Notes Addgene[?]
1 BRDN0001146802 GAAATGATCAACCTTTATGG pXPR_003 AGG 704 33% 6 0.6575 Bmp2k BMP2K 75929
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shRNA constructs matching this transcript with 100% SDR[?] match

This list includes all shRNAs that have a perfect SDR[?] match to Mouse XM_006534788.3, 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 TRCN0000027042 CCGGTCTCCAACATCAATAAT pLKO.1 1184 CDS 100% 15.000 21.000 N Bmp2k n/a
2 TRCN0000321669 CCGGTCTCCAACATCAATAAT pLKO_005 1184 CDS 100% 15.000 21.000 N Bmp2k n/a
3 TRCN0000226438 CTTTGGCAGTGCCACTAATAA pLKO_005 808 CDS 100% 15.000 21.000 N BMP2K n/a
4 TRCN0000026972 CCCGACCTCAACATTTGTAAA pLKO.1 473 CDS 100% 13.200 18.480 N Bmp2k n/a
5 TRCN0000321671 GTATCCTACTTTGCGTTTAAA pLKO_005 1145 CDS 100% 15.000 10.500 N Bmp2k n/a
6 TRCN0000027031 CCGAGTCAGAAGTCCTACAAA pLKO.1 666 CDS 100% 5.625 3.938 N Bmp2k n/a
7 TRCN0000321668 CCGAGTCAGAAGTCCTACAAA pLKO_005 666 CDS 100% 5.625 3.938 N Bmp2k 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_006534788.3, 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 TRCN0000492092 CCCCCGATGGCCCGCTTATCCTAC pLX_317 20.5% 78.8% 79.8% V5 (not translated due to prior stop codon) (many diffs) n/a
2 ccsbBroadEn_15104 pDONR223 76.2% 77.7% 52.8% None (many diffs) n/a
3 ccsbBroad304_15104 pLX_304 0% 77.7% 52.8% V5 (not translated due to prior stop codon) (many diffs) n/a
4 TRCN0000474847 ATTTAGCCGTGCCCAGATTTCCAA pLX_317 21% 77.7% 52.8% V5 (not translated due to prior stop codon) (many diffs) n/a
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