Transcript: Mouse NM_001301427.1

Mus musculus visual system homeobox 2 (Vsx2), transcript variant 1, mRNA.

Source:
NCBI, updated 2017-06-26
Taxon:
Mus musculus (mouse)
Gene:
Vsx2 (12677)
Length:
3276
CDS:
116..1258

Additional Resources:

NCBI RefSeq record:
NM_001301427.1
NBCI Gene record:
Vsx2 (12677)

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_001301427.1, 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 TRCN0000426356 GACTCTAGAAACAGACCAATT pLKO_005 1394 3UTR 100% 10.800 7.560 N Vsx2 n/a
2 TRCN0000429568 TGGCTGAGTATGGTCTCTATG pLKO_005 762 CDS 100% 10.800 7.560 N Vsx2 n/a
3 TRCN0000070538 GCTCCGATTCCGAAGATGTTT pLKO.1 480 CDS 100% 5.625 3.938 N Vsx2 n/a
4 TRCN0000420816 GAGATCCTAGGCTTGAACAAG pLKO_005 221 CDS 100% 4.950 3.465 N Vsx2 n/a
5 TRCN0000070540 CCAGAGTCTATCCTCAAGTCT pLKO.1 812 CDS 100% 3.000 2.100 N Vsx2 n/a
6 TRCN0000070539 GCCAAGGATGGCATAATGGAT pLKO.1 833 CDS 100% 3.000 2.100 N Vsx2 n/a
7 TRCN0000070542 CCTGCCCAAGCTCGACAAGAT pLKO.1 1000 CDS 100% 1.650 1.155 N Vsx2 n/a
8 TRCN0000436517 CCTTATTCTCTGCTCTCTAAG pLKO_005 1572 3UTR 100% 10.800 6.480 N Vsx2 n/a
9 TRCN0000070541 CAGGACAATCTTTACTTCCTA pLKO.1 568 CDS 100% 3.000 1.800 N Vsx2 n/a
10 TRCN0000422606 TGTGGTTCCAGAACCGCAGGA pLKO_005 696 CDS 100% 0.720 0.432 N NKX6-3 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_001301427.1, 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_10006 pDONR223 100% 86.7% 91.8% None (many diffs) n/a
2 ccsbBroad304_10006 pLX_304 0% 86.7% 91.8% V5 (many diffs) n/a
3 TRCN0000476663 TAGTCTTAGCACCTTTACGATAAT pLX_317 38.9% 86.7% 91.8% V5 (many diffs) n/a
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