Transcript: Mouse XR_001785097.1

PREDICTED: Mus musculus homeodomain interacting protein kinase 2 (Hipk2), transcript variant X3, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Hipk2 (15258)
Length:
14482
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001785097.1
NBCI Gene record:
Hipk2 (15258)

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 Mouse XR_001785097.1, 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 TRCN0000023014 CCACCCATGATTCAGAATAAT pLKO.1 745 3UTR 100% 15.000 21.000 N Hipk2 n/a
2 TRCN0000378475 GAGCGCTGATGACTACAATTT pLKO_005 1053 3UTR 100% 13.200 18.480 N Hipk2 n/a
3 TRCN0000361236 TTTGCCCACCAGACCTATATC pLKO_005 3761 3UTR 100% 13.200 10.560 N Hipk2 n/a
4 TRCN0000023015 CGGGAGTTCATTGACCTGTTA pLKO.1 1786 3UTR 100% 4.950 3.960 N Hipk2 n/a
5 TRCN0000361289 ATGAAGCAGAGACGGGAATTA pLKO_005 1655 3UTR 100% 13.200 9.240 N Hipk2 n/a
6 TRCN0000361288 GTATGATCAGATTCGGTATAT pLKO_005 1512 3UTR 100% 13.200 9.240 N Hipk2 n/a
7 TRCN0000361235 TCCCGAAGTCTCCATACTAAA pLKO_005 2115 3UTR 100% 13.200 9.240 N Hipk2 n/a
8 TRCN0000023016 CCAGTGAAGTGTTGGTAGAAT pLKO.1 3195 3UTR 100% 5.625 3.938 N Hipk2 n/a
9 TRCN0000023018 GTCAACCAATACCCTTACATA pLKO.1 3836 3UTR 100% 5.625 3.938 N Hipk2 n/a
10 TRCN0000023017 CGTATCCTTTGTGGAGGCTAA pLKO.1 1619 3UTR 100% 4.050 2.835 N Hipk2 n/a
11 TRCN0000430874 GCACACAAACAATGCAATGGG pLKO_005 3943 3UTR 100% 2.640 1.848 N Hipk2 n/a
12 TRCN0000166364 CACACACACACACACACACAA pLKO.1 8618 3UTR 100% 4.950 2.475 Y KAAG1 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_001785097.1, 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_15049 pDONR223 67.9% 14.4% None (many diffs) n/a
2 ccsbBroad304_15049 pLX_304 0% 14.4% V5 (not translated due to prior stop codon) (many diffs) n/a
3 TRCN0000473659 TATGTCACATGTATTCCAATTGAC pLX_317 16.3% 14.4% V5 (not translated due to prior stop codon) (many diffs) n/a
4 TRCN0000472506 CCGCAGGAGGTCCTACTGGGGCTC pLX_317 37.9% 6.8% V5 (not translated due to prior stop codon) (many diffs) n/a
5 ccsbBroadEn_15339 pDONR223 100% 6.8% None (many diffs) n/a
6 ccsbBroad304_15339 pLX_304 0% 6.8% V5 (not translated due to prior stop codon) (many diffs) n/a
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