Transcript: Human XM_011537881.3

PREDICTED: Homo sapiens leucine rich repeat kinase 2 (LRRK2), transcript variant X5, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
LRRK2 (120892)
Length:
5180
CDS:
243..5078

Additional Resources:

NCBI RefSeq record:
XM_011537881.3
NBCI Gene record:
LRRK2 (120892)

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 BRDN0001144775 AGTGGTAATCTCGTATGGCA pXPR_003 GGG 4442 92% 31 0.8431 LRRK2 LRRK2 77331
2 BRDN0001146754 CCTGTTACAAAGCATTAACG pXPR_003 TGG 1071 22% 9 0.5602 LRRK2 LRRK2 77330
3 BRDN0001147881 CATGCCAGAAGAATCCAGGG pXPR_003 AGG 1561 32% 14 0.3192 LRRK2 LRRK2 77333
4 BRDN0001148003 AAATCTAATTCAATTAGTGT pXPR_003 AGG 2735 57% 21 -0.7420 LRRK2 LRRK2 77332
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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 Human XM_011537881.3, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000358257 TAGGCTTACATTAGGTAATTT pLKO_005 1067 CDS 100% 15.000 21.000 N LRRK2 n/a
2 TRCN0000021463 CCCAAATTGGTGGAACTCTTA pLKO.1 2505 CDS 100% 4.950 6.930 N LRRK2 n/a
3 TRCN0000021460 CCCAGGATGTTGGAAATGATT pLKO.1 547 CDS 100% 5.625 3.938 N LRRK2 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_011537881.3, 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 TRCN0000465878 ACACTGGGATAATCTTGTACGCTG pLX_317 4.4% 63.6% 63.5% V5 (many diffs) n/a
2 ccsbBroadEn_15231 pDONR223 12.5% 61.9% 2.3% None (many diffs) n/a
3 ccsbBroad304_15231 pLX_304 0% 61.9% 2.3% V5 (not translated due to prior stop codon) (many diffs) n/a
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