Transcript: Mouse NM_010454.1

Mus musculus homeobox A6 (Hoxa6), mRNA.

Source:
NCBI, updated 2017-04-30
Taxon:
Mus musculus (mouse)
Gene:
Hoxa6 (15403)
Length:
699
CDS:
1..699

Additional Resources:

NCBI RefSeq record:
NM_010454.1
NBCI Gene record:
Hoxa6 (15403)

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_010454.1, 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 TRCN0000428431 CCAACAGTCCAACTCGGTCTT pLKO_005 174 CDS 100% 4.050 5.670 N Hoxa6 n/a
2 TRCN0000070806 CAACCGGGCATCCTACGAGTA pLKO.1 201 CDS 100% 1.350 1.890 N Hoxa6 n/a
3 TRCN0000070804 GAAGTACACAAGCCCTGTTTA pLKO.1 387 CDS 100% 13.200 9.240 N Hoxa6 n/a
4 TRCN0000070805 GACATACACCTCACCTTGTTT pLKO.1 150 CDS 100% 5.625 3.938 N Hoxa6 n/a
5 TRCN0000070803 CCTCATGTTTCTATTCTGATA pLKO.1 227 CDS 100% 4.950 3.465 N Hoxa6 n/a
6 TRCN0000418290 GCAAAGCCCTCCATGAGGAAG pLKO_005 356 CDS 100% 1.350 0.945 N Hoxa6 n/a
7 TRCN0000367992 TTCCAGAATCGGCGCATGAAG pLKO_005 604 CDS 100% 4.950 2.475 Y Hoxa7 n/a
8 TRCN0000428137 GATCAAGATCTGGTTCCAGAA pLKO_005 591 CDS 100% 4.050 2.025 Y Hoxa3 n/a
9 TRCN0000413913 TCACCGAGCGCCAGATCAAGA pLKO_005 578 CDS 100% 1.650 0.825 Y Hoxa3 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_010454.1, 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_00772 pDONR223 100% 92.8% 96.1% None (many diffs) n/a
2 ccsbBroad304_00772 pLX_304 0% 92.8% 96.1% V5 (many diffs) n/a
3 TRCN0000480809 ATACACATAAGGATTATTCCCCCG pLX_317 49.5% 92.8% 96.1% V5 (many diffs) n/a
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