Transcript: Mouse XM_006519627.2

PREDICTED: Mus musculus sterile alpha motif domain containing 4 (Samd4), transcript variant X1, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Samd4 (74480)
Length:
6668
CDS:
27..2312

Additional Resources:

NCBI RefSeq record:
XM_006519627.2
NBCI Gene record:
Samd4 (74480)

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_006519627.2, 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 TRCN0000219545 CGACGCGAAAGCAGAGTATAT pLKO.1 311 CDS 100% 13.200 18.480 N Samd4 n/a
2 TRCN0000219546 GATTATGGACAGACGCATTAC pLKO.1 534 CDS 100% 10.800 8.640 N Samd4 n/a
3 TRCN0000217513 GTCTTGTTCATGAGGCATTTA pLKO.1 1738 CDS 100% 13.200 9.240 N Samd4 n/a
4 TRCN0000219547 AGACAGAACTCTGACGATAAG pLKO.1 564 CDS 100% 10.800 7.560 N Samd4 n/a
5 TRCN0000116146 GCAACAGGAATCCAAGGATAA pLKO.1 239 CDS 100% 10.800 7.560 N SAMD4A n/a
6 TRCN0000288937 GCAACAGGAATCCAAGGATAA pLKO_005 239 CDS 100% 10.800 7.560 N SAMD4A n/a
7 TRCN0000179422 CCTCCAGCAAACTTTCAGATA pLKO.1 2869 3UTR 100% 4.950 3.465 N Samd4 n/a
8 TRCN0000184529 GCAGAAGCTCTTTCGGTCTTT pLKO.1 1802 CDS 100% 4.950 3.465 N Samd4 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_006519627.2, 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_07831 pDONR223 100% 74.1% 77.2% None (many diffs) n/a
2 ccsbBroad304_07831 pLX_304 0% 74.1% 77.2% V5 (many diffs) n/a
3 TRCN0000491644 TAACATCATGGATAGATATGTGGT pLX_317 18.5% 74.1% 77.2% V5 (many diffs) n/a
4 ccsbBroadEn_15747 pDONR223 0% 33.8% 35.2% None (many diffs) n/a
5 ccsbBroad304_15747 pLX_304 0% 33.8% 35.2% V5 (many diffs) n/a
6 TRCN0000465896 TGGTACACAGTCATTTGCATACCT pLX_317 39.4% 33.8% 35.2% V5 (many diffs) n/a
7 ccsbBroadEn_11662 pDONR223 100% 30.2% 30% None (many diffs) n/a
8 ccsbBroad304_11662 pLX_304 0% 30.2% 30% V5 (many diffs) n/a
9 TRCN0000469313 GCGTCCTGTCCTACTGCTGGTGAC pLX_317 65% 30.2% 30% V5 (many diffs) n/a
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