Transcript: Mouse XR_001778947.1

PREDICTED: Mus musculus secretory carrier membrane protein 5 (Scamp5), transcript variant X3, misc_RNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Scamp5 (56807)
Length:
3405
CDS:
(non-coding)

Additional Resources:

NCBI RefSeq record:
XR_001778947.1
NBCI Gene record:
Scamp5 (56807)

sgRNA constructs matching this transcript (CRISPRko, NGG PAM)

This list includes CRISPRko constructs with 100% (20mer + NGG) sequence match to the exonic sequence of this non-coding 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 XR_001778947.1, 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 TRCN0000306109 GGTGATGAGCCTAAGCTATTT pLKO_005 1489 3UTR 100% 13.200 9.240 N Scamp5 n/a
2 TRCN0000306042 TGCTCTTAGCATGGTTCATAA pLKO_005 855 3UTR 100% 13.200 9.240 N Scamp5 n/a
3 TRCN0000105537 CCCAACTACACGTACTCCAAT pLKO.1 1033 3UTR 100% 4.950 3.465 N Scamp5 n/a
4 TRCN0000105536 GCCATGTTTCTACCAAGACTT pLKO.1 391 3UTR 100% 4.950 3.465 N Scamp5 n/a
5 TRCN0000149276 GCCATGTTTCTACCAAGACTT pLKO.1 391 3UTR 100% 4.950 3.465 N SCAMP5 n/a
6 TRCN0000325775 GCCATGTTTCTACCAAGACTT pLKO_005 391 3UTR 100% 4.950 3.465 N Scamp5 n/a
7 TRCN0000105538 GCCCATTTACAAGGCCTTCAA pLKO.1 610 3UTR 100% 4.950 3.465 N Scamp5 n/a
8 TRCN0000325707 GCCCATTTACAAGGCCTTCAA pLKO_005 610 3UTR 100% 4.950 3.465 N Scamp5 n/a
9 TRCN0000105539 GCGGCTGGATTGCCACCATTT pLKO.1 749 3UTR 100% 3.600 2.520 N Scamp5 n/a
10 TRCN0000353993 GCGGCTGGATTGCCACCATTT pLKO_005 749 3UTR 100% 3.600 2.520 N Scamp5 n/a
11 TRCN0000105535 CCAGTCAACTTCCTGTCCTAT pLKO.1 3007 3UTR 100% 4.950 2.970 N Scamp5 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 XR_001778947.1, 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_05167 pDONR223 100% 19.2% None (many diffs) n/a
2 ccsbBroad304_05167 pLX_304 0% 19.2% V5 (many diffs) n/a
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