Transcript: Mouse XM_006516849.3

PREDICTED: Mus musculus sideroflexin 1 (Sfxn1), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Sfxn1 (14057)
Length:
2824
CDS:
113..1081

Additional Resources:

NCBI RefSeq record:
XM_006516849.3
NBCI Gene record:
Sfxn1 (14057)

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_006516849.3, 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 TRCN0000105366 CGGTTACTGATCCCAGAAATA pLKO.1 201 CDS 100% 13.200 10.560 N Sfxn1 n/a
2 TRCN0000349461 CGGTTACTGATCCCAGAAATA pLKO_005 201 CDS 100% 13.200 10.560 N Sfxn1 n/a
3 TRCN0000105365 CCAGTCCATGTGTAGCTCTAA pLKO.1 2354 3UTR 100% 4.950 3.960 N Sfxn1 n/a
4 TRCN0000317344 CCAGTCCATGTGTAGCTCTAA pLKO_005 2354 3UTR 100% 4.950 3.960 N Sfxn1 n/a
5 TRCN0000313820 CATGGCCATCCCTCCGTTTAT pLKO_005 832 CDS 100% 13.200 9.240 N Sfxn1 n/a
6 TRCN0000313819 ATGAGCTGGGAACGGCTTATG pLKO_005 546 CDS 100% 10.800 7.560 N Sfxn1 n/a
7 TRCN0000105367 GCATGACTACAGGCAAGGAAT pLKO.1 265 CDS 100% 4.950 3.465 N Sfxn1 n/a
8 TRCN0000317407 GCATGACTACAGGCAAGGAAT pLKO_005 265 CDS 100% 4.950 3.465 N Sfxn1 n/a
9 TRCN0000105369 GATGAGACAAAGGGAGCTGAA pLKO.1 697 CDS 100% 4.050 2.835 N Sfxn1 n/a
10 TRCN0000105368 GCAGTGGATAAACCAGTCCTT pLKO.1 472 CDS 100% 2.640 1.848 N Sfxn1 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_006516849.3, 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_04612 pDONR223 100% 84.5% 94.7% None (many diffs) n/a
2 ccsbBroad304_04612 pLX_304 0% 84.5% 94.7% V5 (many diffs) n/a
3 TRCN0000466784 AAAACCCAGGTCGTTCCAACTCAG pLX_317 43.1% 84.5% 94.7% V5 (many diffs) n/a
4 ccsbBroadEn_13003 pDONR223 100% 62.7% 69.8% None (many diffs) n/a
5 ccsbBroad304_13003 pLX_304 0% 62.7% 69.8% V5 (many diffs) n/a
6 TRCN0000468013 GACAAGAAGATGACTTCTGCTATT pLX_317 69% 62.7% 69.8% V5 (many diffs) n/a
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