Transcript: Mouse XM_006499099.3

PREDICTED: Mus musculus cholinergic receptor, muscarinic 5 (Chrm5), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Chrm5 (213788)
Length:
5278
CDS:
3242..4840

Additional Resources:

NCBI RefSeq record:
XM_006499099.3
NBCI Gene record:
Chrm5 (213788)

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_006499099.3, 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 TRCN0000027475 CTGTGGGAAGTCATTACTATT pLKO.1 3320 CDS 100% 13.200 9.240 N Chrm5 n/a
2 TRCN0000027440 GTCAGAAGTGTGTTGCCTATA pLKO.1 4359 CDS 100% 10.800 7.560 N Chrm5 n/a
3 TRCN0000011270 CCATCAAATGACCAAACGAAA pLKO.1 4510 CDS 100% 4.950 3.465 N CHRM5 n/a
4 TRCN0000027419 CCCAGTAAATCACCAGGCTTT pLKO.1 3286 CDS 100% 4.050 2.835 N Chrm5 n/a
5 TRCN0000027438 CCATCACAAGACCACTGACAT pLKO.1 3633 CDS 100% 4.950 2.970 N Chrm5 n/a
6 TRCN0000027407 GTCCTAGTCAAAGAGAGGAAA pLKO.1 4538 CDS 100% 4.950 2.970 N Chrm5 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_006499099.3, 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 TRCN0000492344 CTGCGGTTTGCCTATATCCCCGTT pLX_317 31.2% 88.2% 88.7% V5 (not translated due to prior stop codon) (many diffs) n/a
2 TRCN0000489508 CTTACGAAATTTCGTCTAAATGAA pLX_317 19% 88.1% 88.5% V5 (many diffs) n/a
3 ccsbBroadEn_05998 pDONR223 100% 88.1% 88.5% None (many diffs) n/a
4 ccsbBroad304_05998 pLX_304 0% 88.1% 88.5% V5 (many diffs) n/a
5 TRCN0000492188 ACCAAGATGCCCGAATCCAGGAAT pLX_317 29.2% 88.1% 88.5% V5 (many diffs) n/a
6 ccsbBroadEn_05999 pDONR223 100% 88.1% 88.5% None (many diffs) n/a
7 ccsbBroad304_05999 pLX_304 0% 88.1% 88.5% V5 (many diffs) n/a
8 TRCN0000480824 TTCCCCGTTCCTAGAAGGGGCAAA pLX_317 31.1% 88.1% 88.5% V5 (many diffs) n/a
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