Transcript: Mouse XM_006506192.1

PREDICTED: Mus musculus AP2 associated kinase 1 (Aak1), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Aak1 (269774)
Length:
8014
CDS:
572..3448

Additional Resources:

NCBI RefSeq record:
XM_006506192.1
NBCI Gene record:
Aak1 (269774)

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 BRDN0001149114 TGGCAAAATCATCACTACGA pXPR_003 AGG 721 25% 6 0.5528 Aak1 AAK1 77938
2 BRDN0001146970 CAAAAGGCCGGATATTTACC pXPR_003 AGG 913 32% 8 0.0499 Aak1 AAK1 77935
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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_006506192.1, 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 TRCN0000366925 ACCCTATTCCTGTACTAATTA pLKO_005 3318 CDS 100% 15.000 21.000 N Aak1 n/a
2 TRCN0000366970 TCACTACGAAGGCAGATATTT pLKO_005 1287 CDS 100% 15.000 21.000 N Aak1 n/a
3 TRCN0000366917 TGCACTGCCTTATTAGGTATA pLKO_005 1428 CDS 100% 10.800 15.120 N Aak1 n/a
4 TRCN0000001945 GCCACCAACAAATTCCAGAAT pLKO.1 1163 CDS 100% 4.950 3.960 N AAK1 n/a
5 TRCN0000376026 CTCTCTGCTCCCACTCATAAA pLKO_005 3221 CDS 100% 13.200 9.240 N Aak1 n/a
6 TRCN0000376027 ACGGATTCTCAGTGATGTAAC pLKO_005 2461 CDS 100% 10.800 7.560 N Aak1 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_006506192.1, 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 TRCN0000489763 GGTGAGATCGGGAATAACTTGTGA pLX_317 12.5% 88.4% 90.9% V5 (many diffs) n/a
2 ccsbBroadEn_15743 pDONR223 0% 44.8% 46.5% None (many diffs) n/a
3 ccsbBroad304_15743 pLX_304 0% 44.8% 46.5% V5 (not translated due to frame shift) (many diffs) n/a
4 ccsbBroadEn_14996 pDONR223 0% 44.8% 46.5% None (many diffs) n/a
5 ccsbBroad304_14996 pLX_304 0% 44.8% 46.5% V5 (not translated due to frame shift) (many diffs) n/a
6 TRCN0000480400 TTCCGCAAACCAGCTCCAAAAACG pLX_317 27.7% 44.8% 46.5% V5 (not translated due to prior stop codon) (many diffs) n/a
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