Transcript: Mouse XM_006522721.3

PREDICTED: Mus musculus sphingomyelin phosphodiesterase 4 (Smpd4), transcript variant X2, mRNA.

Source:
NCBI, updated 2016-06-22
Taxon:
Mus musculus (mouse)
Gene:
Smpd4 (77626)
Length:
3639
CDS:
140..2614

Additional Resources:

NCBI RefSeq record:
XM_006522721.3
NBCI Gene record:
Smpd4 (77626)

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_006522721.3, 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 TRCN0000124166 CCCAATGTTTGGTCCTGAAAT pLKO.1 1759 CDS 100% 13.200 18.480 N Smpd4 n/a
2 TRCN0000302443 CCCAATGTTTGGTCCTGAAAT pLKO_005 1759 CDS 100% 13.200 18.480 N Smpd4 n/a
3 TRCN0000124165 GCCTGAAAGCTGACTCTATAA pLKO.1 273 CDS 100% 13.200 18.480 N Smpd4 n/a
4 TRCN0000331603 GCCTGAAAGCTGACTCTATAA pLKO_005 273 CDS 100% 13.200 18.480 N Smpd4 n/a
5 TRCN0000245620 CCTGAAAGCTGACTCTATAAA pLKO_005 274 CDS 100% 15.000 10.500 N SMPD4 n/a
6 TRCN0000245619 GGAGTACCTGCGCCAGATATT pLKO_005 1999 CDS 100% 13.200 9.240 N SMPD4 n/a
7 TRCN0000124168 CCTCAATCCATTTGAATACTA pLKO.1 679 CDS 100% 5.625 3.938 N Smpd4 n/a
8 TRCN0000124164 GCAGTGGTGGAGTTATTCAAA pLKO.1 2714 3UTR 100% 5.625 3.938 N Smpd4 n/a
9 TRCN0000302442 GCAGTGGTGGAGTTATTCAAA pLKO_005 2714 3UTR 100% 5.625 3.938 N Smpd4 n/a
10 TRCN0000124167 CCAATGTCTATGACCCTCCAT pLKO.1 737 CDS 100% 2.640 1.848 N Smpd4 n/a
11 TRCN0000302505 CCAATGTCTATGACCCTCCAT pLKO_005 737 CDS 100% 2.640 1.848 N Smpd4 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_006522721.3, 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_12238 pDONR223 100% 69.6% 73.3% None (many diffs) n/a
2 ccsbBroad304_12238 pLX_304 0% 69.6% 73.3% V5 (many diffs) n/a
3 TRCN0000477592 CCTTTCAAACCCGATGTTAGGCCA pLX_317 5% 69.6% 73.3% V5 (many diffs) n/a
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