Transcript: Human XM_006710955.4

PREDICTED: Homo sapiens ubiquitin specific peptidase 48 (USP48), transcript variant X1, mRNA.

Source:
NCBI, updated 2019-09-08
Taxon:
Homo sapiens (human)
Gene:
USP48 (84196)
Length:
3607
CDS:
183..3092

Additional Resources:

NCBI RefSeq record:
XM_006710955.4
NBCI Gene record:
USP48 (84196)

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_006710955.4, 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 TRCN0000295937 TTGGTATTGGTGAGCATATTT pLKO_005 349 CDS 100% 15.000 21.000 N USP48 n/a
2 TRCN0000038830 GCCACCATCTATGTCCATAAA pLKO.1 2568 CDS 100% 13.200 18.480 N USP48 n/a
3 TRCN0000038833 GCGTCTGAAGAACCAACTAAA pLKO.1 1679 CDS 100% 13.200 18.480 N USP48 n/a
4 TRCN0000038831 GCGTAAGCAAAGTGTGGATAA pLKO.1 1553 CDS 100% 10.800 15.120 N USP48 n/a
5 TRCN0000298778 GCGTAAGCAAAGTGTGGATAA pLKO_005 1553 CDS 100% 10.800 15.120 N USP48 n/a
6 TRCN0000038832 CCACTTGTTATGTCAACACAT pLKO.1 469 CDS 100% 4.950 3.960 N USP48 n/a
7 TRCN0000298718 CCACTTGTTATGTCAACACAT pLKO_005 469 CDS 100% 4.950 3.960 N USP48 n/a
8 TRCN0000307997 CCAGATGCGTTGGTCCATAAA pLKO_005 3456 3UTR 100% 13.200 9.240 N USP48 n/a
9 TRCN0000295936 GAATCCAGATGTGCGCAATAT pLKO_005 785 CDS 100% 13.200 9.240 N USP48 n/a
10 TRCN0000038829 GCATTAAAGCAAAGGTGGATT pLKO.1 3156 3UTR 100% 4.950 3.465 N USP48 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_006710955.4, 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_12792 pDONR223 100% 45.6% 44.9% None 1302_1303insT;1329_2907del n/a
2 ccsbBroad304_12792 pLX_304 0% 45.6% 44.9% V5 1302_1303insT;1329_2907del n/a
3 TRCN0000472881 AACGAATAAGCCATGACACAAATA pLX_317 42.9% 45.6% 44.9% V5 1302_1303insT;1329_2907del n/a
4 ccsbBroadEn_12793 pDONR223 100% 26.2% 26.2% None 1_2145del n/a
5 ccsbBroad304_12793 pLX_304 0% 26.2% 26.2% V5 1_2145del n/a
6 TRCN0000473772 TTGATGTTGGAGTCAAATGCATTT pLX_317 65.7% 26.2% 26.2% V5 1_2145del n/a
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