Hs06780707_cn

• Gene Symbol: TRIM39
• Assay Reference Genome Location: Chr.6:30331843 on build GRCh38
• Cytoband: 6p22.1

Target Gene Details

• Entrez Gene ID: 56658
• Gene Name: tripartite motif containing 39
• Gene Aliases: RNF23, TFP, TRIM39B
• Location: Chr.6:30326844-30343729 on Build GRCh38
• Assay Gene Location: Within Intron 5

Gene Symbol	Transcript Accession	Exon Location	Assay Transcript Location	Protein ID
TRIM39	NM_021253.3			NP_067076.2
	NM_172016.2			NP_742013.1
	AB046381.1			BAB16374.1
	AK292512.1
	AX776007.1			CAE11703.1
	BC007661.2			AAH07661.1
	BC034985.1			AAH34985.1
	BT007370.1			AAP36034.1

Target Gene Details

• Entrez Gene ID: 202658
• Gene Name: TRIM39-RPP21 readthrough
• Gene Aliases: TRIM39R
• Location: Chr.6:30329311-30346858 on Build GRCh38
• Assay Gene Location: Within Intron 2

Gene Symbol	Transcript Accession	Exon Location	Assay Transcript Location	Protein ID
TRIM39-RPP21	NM_001199119.1			NP_001186048.1
	AI805914.1
	EU012025.1

Target Copy Number Variation Details

• DGV Version: Release date: 2016-05-15, GRCh GRCh38

Target Variation	Location	CNV Subtype	Genes
nsv1074389	Chr.6:29116522 - 31446623 on Build GRCh38	Deletion	DHX16 TRIM39 OR2H1 OR10C1 HLA-K TRIM15 FLOT1 MUC22 LINC01015 HLA-G HCG20 UBD HLA-H CCHCR1 PPP1R18 TRIM31-AS1 OR2H2 MOG OR5V1 DPCR1 GTF2H4 PSORS1C2 RPP21 HCG18 IER3 TCF19 OR11A1 TRIM31 LOC105375014 MDC1 HLA-L PRR3 HLA-F TRIM39-RPP21 MIR4640 MICA HCG22 POU5F1 GABBR1 MIR6891 VARS2 OR12D2 ABCF1 OR14J1 HLA-J HLA-C MDC1-AS1 PPP1R11 C6orf136 TUBB PSORS1C3 HCG17 TRIM40 HLA-F-AS1 TRIM10 PSORS1C1 IFITM4P LINC00243 ATAT1 ZFP57 NRM PPP1R10 HCG27 HLA-A HCG4B ZNRD1ASP HCG8 SNORD32B OR12D3 GNL1 DDR1 RNF39 ZNRD1 C6orf15 OR2J2 MUC21 HCG9 MIR877 LOC554223 MRPS18B HLA-E SFTA2 TRIM26 MAS1L HCG4 CDSN HLA-B LOC101929006
nsv1122126	Chr.6:28628023 - 31244023 on Build GRCh38	Deletion	LINC01623 DHX16 HCG16 TRIM27 TRIM39 OR2H1 OR10C1 HLA-K TRIM15 FLOT1 MUC22 LOC100129636 LINC01015 HLA-G HCG20 UBD HLA-H CCHCR1 PPP1R18 OR2W1 TRIM31-AS1 OR2H2 MOG OR5V1 DPCR1 OR2J3 GTF2H4 PSORS1C2 RPP21 HCG18 IER3 LINC00533 TCF19 OR11A1 TRIM31 LOC105375014 MDC1 HLA-L PRR3 HLA-F TRIM39-RPP21 MIR4640 HCG22 POU5F1 GABBR1 VARS2 OR12D2 ABCF1 OR14J1 HLA-J MDC1-AS1 PPP1R11 C6orf136 TUBB PSORS1C3 HCG17 TRIM40 HLA-F-AS1 ZNF311 TRIM10 PSORS1C1 IFITM4P OR2B3 LINC00243 HCG14 ATAT1 ZFP57 NRM PPP1R10 HCG27 HLA-A HCG4B ZNRD1ASP HCG8 SNORD32B OR12D3 GNL1 DDR1 RNF39 ZNRD1 C6orf15 OR2J2 MUC21 HCG9 MIR877 LOC554223 MRPS18B HLA-E SFTA2 TRIM26 LINC01556 MAS1L HCG4 CDSN LOC101929006
nsv1144137	Chr.6:29720323 - 31338123 on Build GRCh38	Deletion	DHX16 TRIM39 HLA-K TRIM15 FLOT1 MUC22 HLA-G HCG20 HLA-H CCHCR1 PPP1R18 TRIM31-AS1 DPCR1 GTF2H4 PSORS1C2 RPP21 HCG18 IER3 TCF19 TRIM31 LOC105375014 MDC1 HLA-L PRR3 HLA-F TRIM39-RPP21 MIR4640 HCG22 POU5F1 VARS2 ABCF1 HLA-J HLA-C MDC1-AS1 PPP1R11 C6orf136 TUBB PSORS1C3 HCG17 TRIM40 HLA-F-AS1 TRIM10 PSORS1C1 IFITM4P LINC00243 ATAT1 NRM PPP1R10 HCG27 HLA-A HCG4B ZNRD1ASP HCG8 GNL1 DDR1 RNF39 ZNRD1 C6orf15 MUC21 HCG9 MIR877 LOC554223 MRPS18B HLA-E SFTA2 TRIM26 HCG4 CDSN
nsv601264	Chr.6:29883666 - 31320716 on Build GRCh38	Loss	DHX16 TRIM39 HLA-K TRIM15 FLOT1 MUC22 HCG20 HLA-H CCHCR1 PPP1R18 TRIM31-AS1 DPCR1 GTF2H4 PSORS1C2 RPP21 HCG18 IER3 TCF19 TRIM31 LOC105375014 MDC1 HLA-L PRR3 TRIM39-RPP21 MIR4640 HCG22 POU5F1 VARS2 ABCF1 HLA-J HLA-C MDC1-AS1 PPP1R11 C6orf136 TUBB PSORS1C3 HCG17 TRIM40 TRIM10 PSORS1C1 LINC00243 ATAT1 NRM PPP1R10 HCG27 HLA-A HCG4B ZNRD1ASP HCG8 GNL1 DDR1 RNF39 ZNRD1 C6orf15 MUC21 HCG9 MIR877 MRPS18B HLA-E SFTA2 TRIM26 CDSN
esv3411275	Chr.6:29981607 - 31490616 on Build GRCh38	Duplication	DHX16 TRIM39 TRIM15 FLOT1 MUC22 HCG20 CCHCR1 PPP1R18 TRIM31-AS1 DPCR1 GTF2H4 PSORS1C2 RPP21 HCG18 IER3 TCF19 TRIM31 LOC105375014 MDC1 HLA-L LOC102725068 PRR3 TRIM39-RPP21 MIR4640 MICA HCG22 POU5F1 MIR6891 VARS2 ABCF1 HCP5 HLA-J HLA-C MDC1-AS1 PPP1R11 C6orf136 TUBB PSORS1C3 HCG17 HCG26 TRIM40 TRIM10 PSORS1C1 LINC00243 ATAT1 NRM PPP1R10 HCG27 ZNRD1ASP HCG8 GNL1 DDR1 RNF39 ZNRD1 C6orf15 MUC21 MIR877 MRPS18B HLA-E SFTA2 TRIM26 CDSN HLA-B

More Information

Additional Information:

For this assay, SNP(s) [rs78683636] are located under a primer or probe sequence. To help evaluate the possible impact of a given SNP on your experiment, please refer to the 1000 Genomes and NCBI dbSNP databases. A higher minor allele frequency in your study population represents a higher risk to assay performance.

• Set Membership: Intragenic, Intronic, Non-exonic, DGV Variation

Panther Classification:

Molecular Function -

ubiquitin-protein ligase

Gene Ontology Categories:

Process(es)

apoptotic process
protein ubiquitination
negative regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process
positive regulation of apoptotic signaling pathway

Function(s)

protein binding
zinc ion binding
ligase activity
identical protein binding