Transcript: Mouse XM_006530370.3

PREDICTED: Mus musculus huntingtin interacting protein 1 related (Hip1r), transcript variant X3, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Hip1r (29816)
Length:
2959
CDS:
153..2933

Additional Resources:

NCBI RefSeq record:
XM_006530370.3
NBCI Gene record:
Hip1r (29816)

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_006530370.3, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000311312 GCGTGAAACTGGAGGTGAATG pLKO_005 2593 CDS 100% 10.800 8.640 N Hip1r n/a
2 TRCN0000090194 CCTGGTGAATATCTATACCAA pLKO.1 536 CDS 100% 3.000 2.400 N Hip1r n/a
3 TRCN0000090197 GCCTGAGAACCTAATTGAAAT pLKO.1 1094 CDS 100% 13.200 9.240 N Hip1r n/a
4 TRCN0000309798 GCCTGAGAACCTAATTGAAAT pLKO_005 1094 CDS 100% 13.200 9.240 N Hip1r n/a
5 TRCN0000305358 GTGCTTCACATGGGCAAATAC pLKO_005 2832 CDS 100% 13.200 9.240 N Hip1r n/a
6 TRCN0000348525 AGCTTACCGTGGAGATGTTTG pLKO_005 673 CDS 100% 10.800 7.560 N Hip1r n/a
7 TRCN0000348524 ATCGGTTCCACGAGCAGTTTC pLKO_005 904 CDS 100% 10.800 7.560 N Hip1r n/a
8 TRCN0000090195 CTGGTGAATATCTATACCAAA pLKO.1 537 CDS 100% 4.950 3.465 N Hip1r n/a
9 TRCN0000379616 CCTTCTGGTCCTATGCCATTG pLKO_005 349 CDS 100% 6.000 3.600 N HIP1R 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_006530370.3, 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 ccsbBroadEn_11326 pDONR223 100% 57.9% 59.7% None (many diffs) n/a
2 ccsbBroad304_11326 pLX_304 0% 57.9% 59.7% V5 (many diffs) n/a
3 TRCN0000477983 ATATCTCCAGTATACTTTCAGAAG pLX_317 13.5% 57.9% 59.7% V5 (many diffs) n/a
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