Transcript: Mouse XM_017315980.1

PREDICTED: Mus musculus scavenger receptor class A, member 3 (Scara3), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Scara3 (219151)
Length:
3520
CDS:
429..2177

Additional Resources:

NCBI RefSeq record:
XM_017315980.1
NBCI Gene record:
Scara3 (219151)

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_017315980.1, 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 TRCN0000379132 CTCCAATACCACACCCGATAT pLKO_005 1410 CDS 100% 10.800 15.120 N Scara3 n/a
2 TRCN0000328906 GAAGGGTTGCTACAATCATTG pLKO_005 2241 3UTR 100% 10.800 15.120 N Scara3 n/a
3 TRCN0000217878 GAGATTGAAATCGGCACTATC pLKO.1 1488 CDS 100% 10.800 15.120 N Scara3 n/a
4 TRCN0000176360 CAATATCAATGCCACCGACAA pLKO.1 1514 CDS 100% 4.050 5.670 N Scara3 n/a
5 TRCN0000174767 GTTAGACTTCAATGTCCGAAA pLKO.1 1697 CDS 100% 4.050 3.240 N Scara3 n/a
6 TRCN0000328910 CTGCCAAGACTGGCGAAATAG pLKO_005 1234 CDS 100% 13.200 9.240 N Scara3 n/a
7 TRCN0000328977 GGACACACACCACGGAGAAAT pLKO_005 1751 CDS 100% 13.200 9.240 N Scara3 n/a
8 TRCN0000375229 TGCCAGAAGAACCTATCTTTG pLKO_005 561 CDS 100% 10.800 7.560 N Scara3 n/a
9 TRCN0000063455 GCTGCCAGAAGAACCTATCTT pLKO.1 559 CDS 100% 5.625 3.938 N SCARA3 n/a
10 TRCN0000300916 GCTGCCAGAAGAACCTATCTT pLKO_005 559 CDS 100% 5.625 3.938 N SCARA3 n/a
11 TRCN0000175412 CAGAACTACACCAGACTCTTT pLKO.1 1194 CDS 100% 4.950 3.465 N Scara3 n/a
12 TRCN0000194500 GCAGAACTACACCAGACTCTT pLKO.1 1193 CDS 100% 4.950 3.465 N Scara3 n/a
13 TRCN0000193961 GCCCTGATCAATTGTTCCTTT pLKO.1 762 CDS 100% 4.950 3.465 N Scara3 n/a
14 TRCN0000173739 CCTGAATAAATCCGTCTCCCT pLKO.1 1622 CDS 100% 0.660 0.462 N Scara3 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_017315980.1, 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_03306 pDONR223 100% 68.6% 70.3% None (many diffs) n/a
2 ccsbBroad304_03306 pLX_304 0% 68.6% 70.3% V5 (many diffs) n/a
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