Transcript: Mouse XM_006541389.3

PREDICTED: Mus musculus septin 6 (Sept6), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Sept6 (56526)
Length:
2963
CDS:
625..1908

Additional Resources:

NCBI RefSeq record:
XM_006541389.3
NBCI Gene record:
Sept6 (56526)

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_006541389.3, 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 TRCN0000313161 CCCGACAGGACATTCGCTTAA pLKO_005 1092 CDS 100% 10.800 8.640 N Sept6 n/a
2 TRCN0000142333 CGAATCCATGTCTGCTTGTAT pLKO.1 1063 CDS 100% 5.625 4.500 N SEPTIN6 n/a
3 TRCN0000278214 CGAATCCATGTCTGCTTGTAT pLKO_005 1063 CDS 100% 5.625 4.500 N SEPTIN6 n/a
4 TRCN0000112999 CTGTTTAACACCAAGTTTGAA pLKO.1 808 CDS 100% 5.625 4.500 N Sept6 n/a
5 TRCN0000139409 CCGAATCCATGTCTGCTTGTA pLKO.1 1062 CDS 100% 4.950 3.960 N SEPTIN6 n/a
6 TRCN0000313234 ACTGTCTTCAGACACTATTAA pLKO_005 2377 3UTR 100% 15.000 10.500 N Sept6 n/a
7 TRCN0000112996 CCAAGTCAGATGCCATTTCTA pLKO.1 1175 CDS 100% 5.625 3.938 N Sept6 n/a
8 TRCN0000349426 CCAAGTCAGATGCCATTTCTA pLKO_005 1175 CDS 100% 5.625 3.938 N Sept6 n/a
9 TRCN0000112995 GCCATTATAGAAGAGTTAGTT pLKO.1 2001 3UTR 100% 5.625 3.938 N Sept6 n/a
10 TRCN0000112997 GAACGCCTTCAAGCAGAGAAA pLKO.1 1803 CDS 100% 4.950 3.465 N Sept6 n/a
11 TRCN0000312183 GAACGCCTTCAAGCAGAGAAA pLKO_005 1803 CDS 100% 4.950 3.465 N Sept6 n/a
12 TRCN0000112998 GAGCTGAAGATCCGAAGAGTA pLKO.1 1021 CDS 100% 4.950 3.465 N Sept6 n/a
13 TRCN0000140002 GATGCTGATTCGGGTCAACAT pLKO.1 1452 CDS 100% 4.950 3.465 N SEPTIN6 n/a
14 TRCN0000278210 GATGCTGATTCGGGTCAACAT pLKO_005 1452 CDS 100% 4.950 3.465 N SEPTIN6 n/a
15 TRCN0000140207 GAGAAAGAAGCGGAGCTCAAA pLKO.1 1678 CDS 100% 4.950 2.970 N SEPTIN6 n/a
16 TRCN0000278213 GAGAAAGAAGCGGAGCTCAAA pLKO_005 1678 CDS 100% 4.950 2.970 N SEPTIN6 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_006541389.3, 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_02724 pDONR223 100% 90.7% 95.8% None (many diffs) n/a
2 ccsbBroad304_02724 pLX_304 0% 90.7% 95.8% V5 (many diffs) n/a
3 TRCN0000470256 TAGGAGACCTACACAGTATGTTGA pLX_317 33.5% 90.7% 95.8% V5 (many diffs) n/a
4 ccsbBroadEn_02725 pDONR223 100% 89.7% 94.7% None (many diffs) n/a
5 ccsbBroad304_02725 pLX_304 0% 89.7% 94.7% V5 (many diffs) n/a
6 TRCN0000479075 ATGGGTCGAGCGTTCGCTTGTACG pLX_317 27.3% 89.7% 94.7% V5 (many diffs) n/a
7 ccsbBroadEn_15750 pDONR223 0% 89.7% 94.4% None (many diffs) n/a
8 ccsbBroad304_15750 pLX_304 0% 89.7% 94.4% V5 (many diffs) n/a
9 TRCN0000473494 TTCTTAGCCAAGAGAAGACGAAAC pLX_317 45.3% 89.7% 94.4% V5 (many diffs) n/a
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