Transcript: Human XM_017004449.2

PREDICTED: Homo sapiens sphingomyelin phosphodiesterase 4 (SMPD4), transcript variant X7, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
SMPD4 (55627)
Length:
5428
CDS:
2994..4280

Additional Resources:

NCBI RefSeq record:
XM_017004449.2
NBCI Gene record:
SMPD4 (55627)

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 Human XM_017004449.2, 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 Human Gene?[?] Orig. Target Gene[?] Addgene[?]
1 TRCN0000245616 AGTGCCAAGACTTGGTTAAAG pLKO_005 206 5UTR 100% 13.200 7.920 N SMPD4 n/a
2 TRCN0000245618 CCCTGAATCCGTTCGAGTATT pLKO_005 572 5UTR 100% 13.200 7.920 N SMPD4 n/a
3 TRCN0000172804 GCAGTGCCAAGACTTGGTTAA pLKO.1 204 5UTR 100% 10.800 6.480 N SMPD4 n/a
4 TRCN0000245620 CCTGAAAGCTGACTCTATAAA pLKO_005 168 5UTR 100% 15.000 7.500 Y SMPD4 n/a
5 TRCN0000245617 ACTTCAGACTGTGCCTATTTC pLKO_005 658 5UTR 100% 13.200 6.600 Y SMPD4 n/a
6 TRCN0000124165 GCCTGAAAGCTGACTCTATAA pLKO.1 167 5UTR 100% 13.200 6.600 Y Smpd4 n/a
7 TRCN0000331603 GCCTGAAAGCTGACTCTATAA pLKO_005 167 5UTR 100% 13.200 6.600 Y Smpd4 n/a
8 TRCN0000245619 GGAGTACCTGCGCCAGATATT pLKO_005 3665 CDS 100% 13.200 6.600 Y SMPD4 n/a
9 TRCN0000156198 CCTCTTGAGTAGCTGGGATTA pLKO.1 2724 5UTR 100% 10.800 5.400 Y MRPL49 n/a
10 TRCN0000276507 CCTCTTGAGTAGCTGGGATTA pLKO_005 2724 5UTR 100% 10.800 5.400 Y MRPL49 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_017004449.2, 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_12238 pDONR223 100% 58.2% 58.2% None 0_1ins921 n/a
2 ccsbBroad304_12238 pLX_304 0% 58.2% 58.2% V5 0_1ins921 n/a
3 TRCN0000477592 CCTTTCAAACCCGATGTTAGGCCA pLX_317 5% 58.2% 58.2% V5 0_1ins921 n/a
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