Transcript: Mouse NM_001159900.1

Mus musculus HOP homeobox (Hopx), transcript variant 2, mRNA.

Source:
NCBI, updated 2017-06-14
Taxon:
Mus musculus (mouse)
Gene:
Hopx (74318)
Length:
1105
CDS:
131..352

Additional Resources:

NCBI RefSeq record:
NM_001159900.1
NBCI Gene record:
Hopx (74318)

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 NM_001159900.1, 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 TRCN0000233342 TTCGGAATGCAGATCTGTTAC pLKO_005 325 CDS 100% 10.800 15.120 N Hopx n/a
2 TRCN0000070500 CCTTCGGAATGCAGATCTGTT pLKO.1 323 CDS 100% 4.950 6.930 N Hopx n/a
3 TRCN0000016404 GAAATGGTTTAAGCAGCGCCT pLKO.1 274 CDS 100% 0.540 0.756 N HOPX n/a
4 TRCN0000233341 CAGACGCAGAAATGGTTTAAG pLKO_005 266 CDS 100% 13.200 9.240 N Hopx n/a
5 TRCN0000233343 CCATCACCTTCCAGTAGTAAT pLKO_005 648 3UTR 100% 13.200 9.240 N Hopx n/a
6 TRCN0000070498 GCAGACGCAGAAATGGTTTAA pLKO.1 265 CDS 100% 13.200 9.240 N Hopx n/a
7 TRCN0000070499 GATCCTGGAGTACAACTTCAA pLKO.1 175 CDS 100% 4.950 3.465 N Hopx n/a
8 TRCN0000233340 ACTTCAACAAGGTCAACAAGC pLKO_005 189 CDS 100% 4.050 2.835 N Hopx n/a
9 TRCN0000070501 AGTACAACTTCAACAAGGTCA pLKO.1 183 CDS 100% 2.640 1.848 N Hopx n/a
10 TRCN0000070502 CAGAAGGCTTGCCTTCGGAAT pLKO.1 312 CDS 100% 0.405 0.284 N Hopx n/a
11 TRCN0000233339 GGAGATCCTGGAGTACAACTT pLKO_005 172 CDS 100% 4.950 2.970 N Hopx n/a
12 TRCN0000016405 GTACAACTTCAACAAGGTCGA pLKO.1 184 CDS 100% 2.160 1.512 N HOPX 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 NM_001159900.1, 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_09198 pDONR223 100% 89% 90.4% None (many diffs) n/a
2 ccsbBroad304_09198 pLX_304 0% 89% 90.4% V5 (many diffs) n/a
3 TRCN0000466149 ACATCACGTACCTGTTAGATCTTT pLX_317 100% 89% 90.4% V5 (many diffs) n/a
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