Transcript: Mouse XM_017318050.1

PREDICTED: Mus musculus choline kinase alpha (Chka), transcript variant X11, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Chka (12660)
Length:
5278
CDS:
3917..4762

Additional Resources:

NCBI RefSeq record:
XM_017318050.1
NBCI Gene record:
Chka (12660)

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_017318050.1, 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 TRCN0000024606 GTTACTTGACTACATTCCAAA pLKO.1 4530 CDS 100% 4.950 6.930 N Chka n/a
2 TRCN0000257303 AGTTACGTTTACCAGATATTT pLKO_005 4041 CDS 100% 15.000 12.000 N Chka n/a
3 TRCN0000234181 GTGAATGGATGTATGATTATA pLKO_005 4431 CDS 100% 15.000 12.000 N Chka n/a
4 TRCN0000024605 CTCTCTTACAACCTGCCTCTT pLKO.1 4220 CDS 100% 4.050 3.240 N Chka n/a
5 TRCN0000361030 AGTGCTGACTTAGGATATTAA pLKO_005 5104 3UTR 100% 15.000 10.500 N Chka n/a
6 TRCN0000378406 AGGCCGACTGGAGCAGTTTAT pLKO_005 3994 CDS 100% 13.200 9.240 N Chka n/a
7 TRCN0000024608 GAATTTGGGTACATGGAATAT pLKO.1 4688 CDS 100% 13.200 9.240 N Chka n/a
8 TRCN0000024607 GAGTTACGTTTACCAGATATT pLKO.1 4040 CDS 100% 13.200 9.240 N Chka n/a
9 TRCN0000378430 GGCGGAAGCTGATGCTTATTG pLKO_005 4356 CDS 100% 13.200 9.240 N Chka n/a
10 TRCN0000234180 ATACCTGAATCAAGTACTAAG pLKO_005 4153 CDS 100% 10.800 7.560 N Chka n/a
11 TRCN0000234182 ATAGCTCAGAACCCGCCTAAA pLKO_005 5000 3UTR 100% 10.800 7.560 N Chka n/a
12 TRCN0000024604 GCCATTCAATAAGGAACCAAA pLKO.1 4108 CDS 100% 4.950 3.465 N Chka n/a
13 TRCN0000218179 GAGTACAGCAGTTACAATTAC pLKO_005 4382 CDS 100% 13.200 7.920 N Chka 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_017318050.1, 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_15336 pDONR223 100% 75.2% 74.6% None (many diffs) n/a
2 ccsbBroad304_15336 pLX_304 0% 75.2% 74.6% V5 (not translated due to frame shift) (many diffs) n/a
3 ccsbBroadEn_14583 pDONR223 100% 67% 6.6% None (many diffs) n/a
4 ccsbBroad304_14583 pLX_304 0% 67% 6.6% V5 (not translated due to prior stop codon) (many diffs) n/a
5 TRCN0000468458 GCTCCATCGTAGTTTCAGGTTTAT pLX_317 33% 67% 6.6% V5 (not translated due to prior stop codon) (many diffs) n/a
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