Transcript: Mouse XM_006523931.3

PREDICTED: Mus musculus sine oculis-related homeobox 2 (Six2), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Six2 (20472)
Length:
1908
CDS:
96..992

Additional Resources:

NCBI RefSeq record:
XM_006523931.3
NBCI Gene record:
Six2 (20472)

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_006523931.3, 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 TRCN0000070782 ACAGCGAGAACTCCAATTCCA pLKO.1 667 CDS 100% 3.000 4.200 N Six2 n/a
2 TRCN0000070779 GCACTACATCGAGGCGGAGAA pLKO.1 365 CDS 100% 1.350 1.890 N Six2 n/a
3 TRCN0000070781 CCGAGCGCAGTACCCGTACCA pLKO.1 870 CDS 100% 0.000 0.000 N Six2 n/a
4 TRCN0000070780 GCTAGGCAGTTCCGAGGATGA pLKO.1 737 CDS 100% 1.350 1.080 N Six2 n/a
5 TRCN0000426266 GAACTAGGCAAGGGAATAAAT pLKO_005 1216 3UTR 100% 15.000 10.500 N Six2 n/a
6 TRCN0000434645 TCCTTCTGGTGTCATCTATTT pLKO_005 1463 3UTR 100% 13.200 9.240 N Six2 n/a
7 TRCN0000416591 CCTGCAGGACTCCATACTCAA pLKO_005 935 CDS 100% 4.950 3.465 N Six2 n/a
8 TRCN0000070778 CCTCCACAAGAATGAAAGCGT pLKO.1 221 CDS 100% 0.750 0.525 N Six2 n/a
9 TRCN0000413841 CAACTTCCGCGAGCTCTACAA pLKO_005 278 CDS 100% 4.950 2.475 Y Six2 n/a
10 TRCN0000082468 CATTTCTCTCTCTCTCTCTTT pLKO.1 1652 3UTR 100% 4.950 2.475 Y NUCKS1 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_006523931.3, 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_07671 pDONR223 100% 91% 96.3% None (many diffs) n/a
2 ccsbBroad304_07671 pLX_304 0% 91% 96.3% V5 (many diffs) n/a
3 TRCN0000467949 TCAACACTCCCATCGGCATACTCT pLX_317 43.7% 91% 96.3% V5 (many diffs) n/a
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