Traf7 TNF receptor associated factor 7 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Traf7provided by RGD
Official Full Name: TNF receptor associated factor 7provided by RGD
Primary source: RGD:1559653
See related: EnsemblRapid:ENSRNOG00000003131 AllianceGenome:RGD:1559653
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: RGD1559653
Summary: Predicted to enable ubiquitin protein ligase activity. Involved in positive regulation of neuron apoptotic process. Predicted to be located in several cellular components, including cytosol; perinuclear region of cytoplasm; and plasma membrane. Predicted to be part of ubiquitin ligase complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in adenomatoid tumor; hepatocellular carcinoma; and peritoneal mesothelioma. Orthologous to human TRAF7 (TNF receptor associated factor 7). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Biased expression in Spleen (RPKM 186.2), Lung (RPKM 183.4) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 10q12

Exon count:: 21

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	10	NC_086028.1 (14038117..14056832, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	10	NC_051345.1 (13533570..13552290, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	10	NC_005109.4 (13874444..13893090, complement)

Chromosome 10 - NC_086028.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

TRAF7 was up-regulated significantly after spinal cord injury, which was paralleled with the levels of the apoptotic protein active caspase-3. Immunofluorescent labeling showed that TRAF7 was co-localizated with active caspase-3 in neurons.
Title: Up-regulation of TNF Receptor-associated Factor 7 after spinal cord injury in rats may have implication for neuronal apoptosis.

Submit: New GeneRIF Correction

General gene information

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Markers

RH132048 (e-PCR)
- UniSTS:215331

RH130595 (e-PCR)
- UniSTS:213879

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables ubiquitin protein ligase activity	ISO Inferred from Sequence Orthology more info
enables ubiquitin-protein transferase activity	ISO Inferred from Sequence Orthology more info
enables zinc ion binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in apoptotic process	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within apoptotic process	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cellular response to interleukin-6	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of transcription by RNA polymerase II	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of MAPK cascade	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within positive regulation of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of MAPK cascade	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of apoptotic signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of neuron apoptotic process	IMP Inferred from Mutant Phenotype more info	PubMed
acts_upstream_of_or_within positive regulation of protein sumoylation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of ubiquitin-dependent protein catabolic process	ISO Inferred from Sequence Orthology more info
involved_in protein K29-linked ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in protein ubiquitination	ISO Inferred from Sequence Orthology more info
involved_in regulation of ERK1 and ERK2 cascade	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of ERK1 and ERK2 cascade	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within regulation of protein localization	ISO Inferred from Sequence Orthology more info

Component	Evidence Code	Pubs
located_in cytosol	ISO Inferred from Sequence Orthology more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
is_active_in nucleus	IBA Inferred from Biological aspect of Ancestor more info
located_in nucleus	ISO Inferred from Sequence Orthology more info
located_in perinuclear region of cytoplasm	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
part_of ubiquitin ligase complex	IBA Inferred from Biological aspect of Ancestor more info
part_of ubiquitin ligase complex	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: E3 ubiquitin-protein ligase TRAF7

Names: TNF receptor-associated factor 7, E3 ubiquitin protein ligase

NP_001121020.1

EC 2.3.2.27

NP_001402082.1

EC 2.3.2.27

XP_006246045.1

EC 2.3.2.27

XP_006246047.1

EC 2.3.2.27

XP_006246049.1

EC 2.3.2.27

XP_006246053.1

EC 2.3.2.27

XP_006246054.1

EC 2.3.2.27

XP_006246055.1

EC 2.3.2.27

XP_017452855.1

EC 2.3.2.27

XP_038942197.1

EC 2.3.2.27

XP_038942199.1

EC 2.3.2.27

XP_063125376.1

EC 2.3.2.27

XP_063125377.1

EC 2.3.2.27

XP_063125378.1

EC 2.3.2.27

XP_063125379.1

EC 2.3.2.27

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_001127548.2 → NP_001121020.1 E3 ubiquitin-protein ligase TRAF7 isoform 2

See identical proteins and their annotated locations for NP_001121020.1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

B1WBW7, F7FIY6

Conserved Domains (6) summary

PRK03918
Location:282 → 372

PRK03918; DNA double-strand break repair ATPase Rad50

cd00200
Location:387 → 667

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:442 → 476

7WD40; WD40 repeat [structural motif]

cd16644
Location:128 → 164

mRING-HC-C3HC3D_TRAF7; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 7 (TRAF7) and similar proteins

cl17044
Location:281 → 321

DD_cGKI; Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I

cl19105
Location:206 → 280

Sina; Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins ...
NM_001415153.1 → NP_001402082.1 E3 ubiquitin-protein ligase TRAF7 isoform 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000010

UniProtKB/TrEMBL

F7FIY6

Related

ENSRNOP00000094607.2, ENSRNOT00000097263.2

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCr8

Genomic

NC_086028.1 Reference GRCr8

Range

14038117..14056832 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063269309.1 → XP_063125379.1 E3 ubiquitin-protein ligase TRAF7 isoform X6

UniProtKB/TrEMBL

A0A8I6AMJ5
XM_039086271.2 → XP_038942199.1 E3 ubiquitin-protein ligase TRAF7 isoform X7

UniProtKB/TrEMBL

A0A8I6AMJ5

Conserved Domains (5) summary

PRK03918
Location:207 → 297

PRK03918; DNA double-strand break repair ATPase Rad50

cd00200
Location:312 → 592

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:367 → 401

7WD40; WD40 repeat [structural motif]

cd16644
Location:53 → 89

mRING-HC-C3HC3D_TRAF7; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 7 (TRAF7) and similar proteins

cl19105
Location:131 → 205

Sina; Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins ...
XM_039086269.2 → XP_038942197.1 E3 ubiquitin-protein ligase TRAF7 isoform X3

UniProtKB/TrEMBL

A0A8I6AMJ5

Conserved Domains (6) summary

PRK03918
Location:275 → 365

PRK03918; DNA double-strand break repair ATPase Rad50

cd00200
Location:380 → 660

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:435 → 469

7WD40; WD40 repeat [structural motif]

cd16644
Location:121 → 157

mRING-HC-C3HC3D_TRAF7; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 7 (TRAF7) and similar proteins

cl17044
Location:274 → 314

DD_cGKI; Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I

cl19105
Location:199 → 273

Sina; Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins ...
XM_017597366.3 → XP_017452855.1 E3 ubiquitin-protein ligase TRAF7 isoform X2

UniProtKB/TrEMBL

A0A8I6AMJ5
XM_006245983.5 → XP_006246045.1 E3 ubiquitin-protein ligase TRAF7 isoform X1

UniProtKB/TrEMBL

F7FIY6

Related

ENSRNOP00000082217.1, ENSRNOT00000115734.2

Conserved Domains (6) summary

PRK03918
Location:281 → 371

PRK03918; DNA double-strand break repair ATPase Rad50

cd00200
Location:386 → 666

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:441 → 475

7WD40; WD40 repeat [structural motif]

cd16644
Location:129 → 165

mRING-HC-C3HC3D_TRAF7; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 7 (TRAF7) and similar proteins

cl17044
Location:280 → 320

DD_cGKI; Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I

cl19105
Location:207 → 279

Sina; Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins ...
XM_063269308.1 → XP_063125378.1 E3 ubiquitin-protein ligase TRAF7 isoform X7

UniProtKB/TrEMBL

A0A8I6AMJ5
XM_063269307.1 → XP_063125377.1 E3 ubiquitin-protein ligase TRAF7 isoform X5

UniProtKB/TrEMBL

A0A8I6A9T1
XM_063269306.1 → XP_063125376.1 E3 ubiquitin-protein ligase TRAF7 isoform X4

UniProtKB/TrEMBL

A0A8I6A9T1
XM_006245993.5 → XP_006246055.1 E3 ubiquitin-protein ligase TRAF7 isoform X6

See identical proteins and their annotated locations for XP_006246055.1

UniProtKB/TrEMBL

A0A8I6AMJ5

Conserved Domains (6) summary

PRK03918
Location:248 → 338

PRK03918; DNA double-strand break repair ATPase Rad50

cd00200
Location:353 → 633

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:408 → 442

7WD40; WD40 repeat [structural motif]

cd16644
Location:94 → 130

mRING-HC-C3HC3D_TRAF7; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 7 (TRAF7) and similar proteins

cl17044
Location:247 → 287

DD_cGKI; Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I

cl19105
Location:172 → 246

Sina; Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins ...
XM_006245991.5 → XP_006246053.1 E3 ubiquitin-protein ligase TRAF7 isoform X6

See identical proteins and their annotated locations for XP_006246053.1

UniProtKB/TrEMBL

A0A8I6AMJ5

Conserved Domains (6) summary

PRK03918
Location:248 → 338

PRK03918; DNA double-strand break repair ATPase Rad50

cd00200
Location:353 → 633

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:408 → 442

7WD40; WD40 repeat [structural motif]

cd16644
Location:94 → 130

mRING-HC-C3HC3D_TRAF7; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 7 (TRAF7) and similar proteins

cl17044
Location:247 → 287

DD_cGKI; Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I

cl19105
Location:172 → 246

Sina; Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins ...
XM_006245987.5 → XP_006246049.1 E3 ubiquitin-protein ligase TRAF7 isoform X5

See identical proteins and their annotated locations for XP_006246049.1

UniProtKB/TrEMBL

A0A8I6A9T1

Conserved Domains (6) summary

PRK03918
Location:254 → 344

PRK03918; DNA double-strand break repair ATPase Rad50

cd00200
Location:359 → 639

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:414 → 448

7WD40; WD40 repeat [structural motif]

cd16644
Location:100 → 136

mRING-HC-C3HC3D_TRAF7; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 7 (TRAF7) and similar proteins

cl17044
Location:253 → 293

DD_cGKI; Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I

cl19105
Location:178 → 252

Sina; Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins ...
XM_006245985.5 → XP_006246047.1 E3 ubiquitin-protein ligase TRAF7 isoform X4

See identical proteins and their annotated locations for XP_006246047.1

UniProtKB/TrEMBL

A0A8I6A9T1

Conserved Domains (6) summary

PRK03918
Location:255 → 345

PRK03918; DNA double-strand break repair ATPase Rad50

cd00200
Location:360 → 640

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:415 → 449

7WD40; WD40 repeat [structural motif]

cd16644
Location:101 → 137

mRING-HC-C3HC3D_TRAF7; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 7 (TRAF7) and similar proteins

cl17044
Location:254 → 294

DD_cGKI; Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I

cl19105
Location:179 → 253

Sina; Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins ...
XM_006245992.5 → XP_006246054.1 E3 ubiquitin-protein ligase TRAF7 isoform X6

See identical proteins and their annotated locations for XP_006246054.1

UniProtKB/TrEMBL

A0A8I6AMJ5

Conserved Domains (6) summary

PRK03918
Location:248 → 338

PRK03918; DNA double-strand break repair ATPase Rad50

cd00200
Location:353 → 633

WD40; WD40 domain, found in a number of eukaryotic proteins that cover a wide variety of functions including adaptor/regulatory modules in signal transduction, pre-mRNA processing and cytoskeleton assembly; typically contains a GH dipeptide 11-24 residues from ...

sd00039
Location:408 → 442

7WD40; WD40 repeat [structural motif]

cd16644
Location:94 → 130

mRING-HC-C3HC3D_TRAF7; Modified RING finger, HC subclass (C3HC3D-type), found in tumor necrosis factor (TNF) receptor-associated factor 7 (TRAF7) and similar proteins

cl17044
Location:247 → 287

DD_cGKI; Dimerization/Docking domain of Cyclic GMP-dependent Protein Kinase I

cl19105
Location:172 → 246

Sina; Seven in absentia (Sina) protein family, C-terminal substrate binding domain; composed of the Drosophila Sina protein, the mammalian Sina homolog (Siah), the plant protein SINAT5, and similar proteins. Sina, Siah and SINAT5 are RING-containing proteins ...