Transcript: Mouse XM_006497517.3

PREDICTED: Mus musculus Sec61, alpha subunit 2 (S. cerevisiae) (Sec61a2), transcript variant X5, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Sec61a2 (57743)
Length:
6552
CDS:
4861..5694

Additional Resources:

NCBI RefSeq record:
XM_006497517.3
NBCI Gene record:
Sec61a2 (57743)

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_006497517.3, 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 TRCN0000111644 CGTGGATAGAAGTTTCTGGTT pLKO.1 5396 CDS 100% 2.640 3.696 N Sec61a2 n/a
2 TRCN0000111641 GCTCTTCTACACGTCGAATAT pLKO.1 5109 CDS 100% 13.200 10.560 N Sec61a2 n/a
3 TRCN0000309924 GCTCTTCTACACGTCGAATAT pLKO_005 5109 CDS 100% 13.200 10.560 N Sec61a2 n/a
4 TRCN0000166254 CCAGATGCTGTCTGTTCGATT pLKO.1 5178 CDS 100% 4.950 3.960 N SEC61A2 n/a
5 TRCN0000343072 CCAGATGCTGTCTGTTCGATT pLKO_005 5178 CDS 100% 4.950 3.960 N SEC61A2 n/a
6 TRCN0000111640 CCTAATGAGTTATGGAGCATT pLKO.1 6072 3UTR 100% 4.950 3.960 N Sec61a2 n/a
7 TRCN0000305488 CATACTGTTTCTGTCAAATAA pLKO_005 5740 3UTR 100% 15.000 10.500 N Sec61a2 n/a
8 TRCN0000311326 GAGTCTATGGGAGCCATATTT pLKO_005 5308 CDS 100% 15.000 10.500 N Sec61a2 n/a
9 TRCN0000111642 CCTGTTCATGTAGTTGTATAT pLKO.1 5335 CDS 100% 13.200 9.240 N Sec61a2 n/a
10 TRCN0000309861 CCTGTTCATGTAGTTGTATAT pLKO_005 5335 CDS 100% 13.200 9.240 N Sec61a2 n/a
11 TRCN0000164803 CTGCTGTTAGATGAGCTGCTA pLKO.1 4583 5UTR 100% 2.640 1.848 N SEC61A2 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_006497517.3, 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_12176 pDONR223 100% 39.7% 44.5% None (many diffs) n/a
2 ccsbBroad304_12176 pLX_304 0% 39.7% 44.5% V5 (many diffs) n/a
3 TRCN0000465248 CTGCCAGGTTTGACATAATTAATT pLX_317 30.6% 39.7% 44.5% V5 (many diffs) n/a
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