Transcript: Human XR_001743443.2

PREDICTED: Homo sapiens parkin RBR E3 ubiquitin protein ligase (PRKN), transcript variant X5, misc_RNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
PRKN (5071)
Length:
4272
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001743443.2
NBCI Gene record:
PRKN (5071)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 Human XR_001743443.2, 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 TRCN0000355822 TTGCACCTGATCGCAACAAAT pLKO_005 782 3UTR 100% 13.200 18.480 N PRKN n/a
2 TRCN0000355823 ATGTATCTGTATGGGTCATTC pLKO_005 1930 3UTR 100% 10.800 15.120 N PRKN n/a
3 TRCN0000000282 CGCAACAAATAGTCGGAACAT pLKO.1 793 3UTR 100% 4.950 6.930 N PRKN n/a
4 TRCN0000000283 CGTGATTTGCTTAGACTGTTT pLKO.1 877 3UTR 100% 4.950 6.930 N PRKN n/a
5 TRCN0000000281 CGTGAACATAACTGAGGGCAT pLKO.1 2936 3UTR 100% 2.160 1.728 N PRKN n/a
6 TRCN0000000285 CTTAGACTGTTTCCACTTATA pLKO.1 886 3UTR 100% 13.200 9.240 N PRKN n/a
7 TRCN0000355825 GACTCAATGATCGGCAGTTTG pLKO_005 918 3UTR 100% 10.800 7.560 N PRKN n/a
8 TRCN0000355824 GGCCTACAGAGTCGATGAAAG pLKO_005 1359 3UTR 100% 10.800 7.560 N PRKN n/a
9 TRCN0000041146 CGATTCTGACACCAGCATCTT pLKO.1 157 3UTR 100% 4.950 3.465 N Park2 n/a
10 TRCN0000000284 CTCCAAAGAAACCATCAAGAA pLKO.1 1410 3UTR 100% 4.950 3.465 N PRKN n/a
11 TRCN0000078113 GCCTGTAATCCCAGCACTTTA pLKO.1 3794 3UTR 100% 13.200 6.600 Y LIAS 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 XR_001743443.2, 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_11015 pDONR223 100% 25.2% None (many diffs) n/a
2 ccsbBroad304_11015 pLX_304 0% 25.2% V5 (many diffs) n/a
3 TRCN0000467471 TCTTACTCACATTGAGATACATTG pLX_317 4.5% 25.2% V5 (many diffs) n/a
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