Transcript: Human NM_024114.5

Homo sapiens tripartite motif containing 48 (TRIM48), mRNA.

Source:
NCBI, updated 2019-06-30
Taxon:
Homo sapiens (human)
Gene:
TRIM48 (79097)
Length:
1467
CDS:
114..788

Additional Resources:

NCBI RefSeq record:
NM_024114.5
NBCI Gene record:
TRIM48 (79097)

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 NM_024114.5, 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 TRCN0000414921 GCATCACAATGAAGCCAACAG pLKO_005 803 3UTR 100% 4.050 2.835 N TRIM48 n/a
2 TRCN0000423671 ACTTCCTCTCAGACCTATCTT pLKO_005 1250 3UTR 100% 5.625 3.375 N TRIM48 n/a
3 TRCN0000423809 CCAATTACACTGCAGTATGTC pLKO_005 1116 3UTR 100% 4.950 2.970 N TRIM48 n/a
4 TRCN0000218171 ACTTTCACCTCTGGCAAATAT pLKO_005 933 3UTR 100% 15.000 7.500 Y TRIM49D2 n/a
5 TRCN0000337397 CCAATTCTGAGTGGATATTAC pLKO_005 779 CDS 100% 13.200 6.600 Y TRIM53AP n/a
6 TRCN0000337333 ACTGGCAAGACATCCCAATTC pLKO_005 286 CDS 100% 10.800 5.400 Y TRIM53AP n/a
7 TRCN0000033923 CAGGGAGACAAAGAAGATGTT pLKO.1 449 CDS 100% 4.950 2.475 Y TRIM48 n/a
8 TRCN0000033921 GAATGTGGAAACCACCAGAAT pLKO.1 635 CDS 100% 4.950 2.475 Y TRIM48 n/a
9 TRCN0000033920 GAGGAGCAAATGTGTGGCATT pLKO.1 426 CDS 100% 4.050 2.025 Y TRIM48 n/a
10 TRCN0000033919 CCCAATTCTTACTCAGTGCTT pLKO.1 299 CDS 100% 2.640 1.320 Y TRIM48 n/a
11 TRCN0000033922 CATCTGCATGAACTACTTCAT pLKO.1 209 CDS 100% 0.495 0.248 Y TRIM48 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 NM_024114.5, 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_12545 pDONR223 100% 92.7% 92.8% None 1_48del;468T>G n/a
2 ccsbBroad304_12545 pLX_304 0% 92.7% 92.8% V5 1_48del;468T>G n/a
3 TRCN0000474512 GGGAGGGCCCAAAGGTCCATTTTA pLX_317 79.8% 92.7% 92.8% V5 1_48del;468T>G n/a
4 ccsbBroadEn_15934 pDONR223 0% 41.5% 38.4% None (many diffs) n/a
5 ccsbBroad304_15934 pLX_304 0% 41.5% 38.4% V5 (many diffs) n/a
6 TRCN0000476541 TCCAAACTTGTCGCGCACACCGTT pLX_317 25.8% 41.5% 38.4% V5 (many diffs) n/a
7 ccsbBroadEn_03779 pDONR223 100% 41.4% 38.4% None (many diffs) n/a
8 ccsbBroad304_03779 pLX_304 0% 41.4% 38.4% V5 (many diffs) n/a
9 TRCN0000479767 CGAAGACGCCTACTTGGGTCTACC pLX_317 25.8% 41.4% 38.4% V5 (many diffs) n/a
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