Transcript: Mouse XM_011240879.2

PREDICTED: Mus musculus huntingtin interacting protein 1 (Hip1), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Hip1 (215114)
Length:
7983
CDS:
283..3297

Additional Resources:

NCBI RefSeq record:
XM_011240879.2
NBCI Gene record:
Hip1 (215114)

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_011240879.2, 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 Mouse Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000380362 ACAGAGGTATAGCAAGTTAAA pLKO_005 1602 CDS 100% 13.200 18.480 N Hip1 n/a
2 TRCN0000381712 ACGAGAAGGACCACTTGATTG pLKO_005 1319 CDS 100% 10.800 15.120 N Hip1 n/a
3 TRCN0000100195 GCTCGGTTTAAGACTCTTTAT pLKO.1 4446 3UTR 100% 13.200 10.560 N Hip1 n/a
4 TRCN0000381433 AGCGTCAATAAGGCCATTAAT pLKO_005 334 CDS 100% 15.000 10.500 N Hip1 n/a
5 TRCN0000379881 ACAAGTTTGATGACGTCTTTG pLKO_005 1241 CDS 100% 10.800 7.560 N Hip1 n/a
6 TRCN0000381275 AGTACTTCAAGCGGCTCATTC pLKO_005 1046 CDS 100% 10.800 7.560 N Hip1 n/a
7 TRCN0000381809 GGCCGGAGAAAGTGACGTTAA pLKO_005 723 CDS 100% 10.800 7.560 N Hip1 n/a
8 TRCN0000100197 CAGGCTAATGAACAGAGGTAT pLKO.1 1591 CDS 100% 4.950 3.465 N Hip1 n/a
9 TRCN0000100199 GCCTCAACCATTTCTGGCAAA pLKO.1 3034 CDS 100% 4.050 2.835 N Hip1 n/a
10 TRCN0000100198 GCTGAGAACAAGGATGGAGTA pLKO.1 642 CDS 100% 4.050 2.835 N Hip1 n/a
11 TRCN0000100196 CCAGGCTAATGAACAGAGGTA pLKO.1 1590 CDS 100% 2.640 1.848 N Hip1 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_011240879.2, 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_06366 pDONR223 100% 81.9% 84% None (many diffs) n/a
2 ccsbBroad304_06366 pLX_304 0% 81.9% 84% V5 (many diffs) n/a
3 TRCN0000470225 GGCGCGTCTAACTGGCTTTCCGAC pLX_317 15.8% 81.9% 84% V5 (many diffs) n/a
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