Transcript: Mouse XM_006511320.3

PREDICTED: Mus musculus secretory carrier membrane protein 5 (Scamp5), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Scamp5 (56807)
Length:
3440
CDS:
390..1097

Additional Resources:

NCBI RefSeq record:
XM_006511320.3
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 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_006511320.3, 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 TRCN0000306109 GGTGATGAGCCTAAGCTATTT pLKO_005 1524 3UTR 100% 13.200 9.240 N Scamp5 n/a
2 TRCN0000306042 TGCTCTTAGCATGGTTCATAA pLKO_005 890 CDS 100% 13.200 9.240 N Scamp5 n/a
3 TRCN0000105537 CCCAACTACACGTACTCCAAT pLKO.1 1068 CDS 100% 4.950 3.465 N Scamp5 n/a
4 TRCN0000105536 GCCATGTTTCTACCAAGACTT pLKO.1 443 CDS 100% 4.950 3.465 N Scamp5 n/a
5 TRCN0000149276 GCCATGTTTCTACCAAGACTT pLKO.1 443 CDS 100% 4.950 3.465 N SCAMP5 n/a
6 TRCN0000325775 GCCATGTTTCTACCAAGACTT pLKO_005 443 CDS 100% 4.950 3.465 N Scamp5 n/a
7 TRCN0000105538 GCCCATTTACAAGGCCTTCAA pLKO.1 662 CDS 100% 4.950 3.465 N Scamp5 n/a
8 TRCN0000325707 GCCCATTTACAAGGCCTTCAA pLKO_005 662 CDS 100% 4.950 3.465 N Scamp5 n/a
9 TRCN0000105539 GCGGCTGGATTGCCACCATTT pLKO.1 784 CDS 100% 3.600 2.520 N Scamp5 n/a
10 TRCN0000353993 GCGGCTGGATTGCCACCATTT pLKO_005 784 CDS 100% 3.600 2.520 N Scamp5 n/a
11 TRCN0000105535 CCAGTCAACTTCCTGTCCTAT pLKO.1 3042 3UTR 100% 4.950 2.970 N Scamp5 n/a
Download CSV

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_006511320.3, 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.

Download CSV

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% 92.7% 98.7% None (many diffs) n/a
2 ccsbBroad304_05167 pLX_304 0% 92.7% 98.7% V5 (many diffs) n/a
Download CSV