Herc3 hect domain and RLD 3 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Herc3provided by MGI
Official Full Name: hect domain and RLD 3provided by MGI
Primary source: MGI:MGI:1921248
See related: Ensembl:ENSMUSG00000029804 AllianceGenome:MGI:1921248
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Mus musculus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as: mKIAA0032; 5730409F18Rik
Summary: Predicted to enable ubiquitin protein ligase activity. Predicted to be involved in protein ubiquitination and ubiquitin-dependent protein catabolic process. Predicted to be active in cytoplasm. Is expressed in embryo mesenchyme; esophagus; lung; nervous system; and sensory organ. Orthologous to human HERC3 (HECT and RLD domain containing E3 ubiquitin protein ligase 3). [provided by Alliance of Genome Resources, Dec 2024]
Expression: Broad expression in cortex adult (RPKM 14.6), frontal lobe adult (RPKM 10.7) and 24 other tissues See more
Orthologs: human all
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Genomic context

Location:: 6 B3; 6 27.82 cM

Exon count:: 34

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	6	NC_000072.7 (58808440..58897383)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	6	NC_000072.6 (58831455..58920398)

Chromosome 6 - NC_000072.7 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

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

E3 ubiquitin ligase Herc3 deficiency leads to accumulation of subretinal microglia and retinal neurodegeneration.
Title: E3 ubiquitin ligase Herc3 deficiency leads to accumulation of subretinal microglia and retinal neurodegeneration.
Accumulation of NCOA1 dependent on HERC3 deficiency transactivates matrix metallopeptidases and promotes extracellular matrix degradation in intervertebral disc degeneration.
Title: Accumulation of NCOA1 dependent on HERC3 deficiency transactivates matrix metallopeptidases and promotes extracellular matrix degradation in intervertebral disc degeneration.
Allele-specific polyadenylation occurs at the imprinted Herc3/Nap1l5 locus.
Title: Epigenetic control of alternative mRNA processing at the imprinted Herc3/Nap1l5 locus.

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Variation

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Alleles

Alleles of this type are documented at Mouse Genome Informatics (MGI)

Chemically induced (ENU) (1) 1 citation
Endonuclease-mediated (5) 1 citation
Targeted (1)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

AI409755 (e-PCR)
- UniSTS:250383

AI646603 (e-PCR)
- UniSTS:179382

PMC196544P2 (e-PCR)
- UniSTS:271813

Nap1l5 (e-PCR), detects polymorphism
- UniSTS:532169

RH138581 (e-PCR)
- UniSTS:220668

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables ubiquitin protein ligase activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in protein ubiquitination	IBA Inferred from Biological aspect of Ancestor more info
involved_in ubiquitin-dependent protein catabolic process	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: probable E3 ubiquitin-protein ligase HERC3

NP_001348895.1

EC 2.3.2.26

NP_001348896.1

EC 2.3.2.26

NP_082981.3

EC 2.3.2.26

XP_006506759.1

EC 2.3.2.26

XP_006506760.1

EC 2.3.2.26

XP_006506761.1

EC 2.3.2.26

XP_006506764.1

EC 2.3.2.26

XP_011239792.1

EC 2.3.2.26

XP_030111494.1

EC 2.3.2.26

XP_030111495.1

EC 2.3.2.26

XP_036008252.1

EC 2.3.2.26

XP_036008253.1

EC 2.3.2.26

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_001361966.1 → NP_001348895.1 probable E3 ubiquitin-protein ligase HERC3 isoform a

Status: VALIDATED

Description

Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (a). Variants 1 and 2 both encode the same isoform (a).

Source sequence(s)

AC115881, AC166819

Consensus CDS

CCDS20196.1

UniProtKB/TrEMBL

A6H6S0, Q8CFQ0

Conserved Domains (3) summary

COG5184
Location:2 → 331

ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]

cd00078
Location:702 → 1048

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

pfam00415
Location:313 → 377

RCC1; Regulator of chromosome condensation (RCC1) repeat
NM_001361967.1 → NP_001348896.1 probable E3 ubiquitin-protein ligase HERC3 isoform b

Status: VALIDATED

Description

Transcript Variant: This variant (3) differs in the 5' UTR, 3' UTR, and 3' coding sequence compared to variant 1. The resulting isoform (b) has a shorter and distinct C-terminus compared to isoform a.

Source sequence(s)

AC115881, AC166819, AK017531

Consensus CDS

CCDS90054.1

UniProtKB/TrEMBL

G5E876, Q9CYM1

Related

ENSMUSP00000031823.6, ENSMUST00000031823.12

Conserved Domains (3) summary

pfam00415
Location:313 → 377

RCC1; Regulator of chromosome condensation (RCC1) repeat

cl27008
Location:702 → 887

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

cl27697
Location:2 → 331

RCC1; Regulator of chromosome condensation (RCC1) repeat
NM_028705.3 → NP_082981.3 probable E3 ubiquitin-protein ligase HERC3 isoform a

See identical proteins and their annotated locations for NP_082981.3

Status: VALIDATED

Description

Transcript Variant: This variant (2) differs in the 5' UTR compared to variant 1. Variants 1 and 2 both encode the same isoform (a).

Source sequence(s)

BC042574, BC145980

Consensus CDS

CCDS20196.1

UniProtKB/TrEMBL

A6H6S0, Q8CFQ0

Related

ENSMUSP00000040025.9, ENSMUST00000041401.11

Conserved Domains (3) summary

COG5184
Location:2 → 331

ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]

cd00078
Location:702 → 1048

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

pfam00415
Location:313 → 377

RCC1; Regulator of chromosome condensation (RCC1) repeat

RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

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

Reference GRCm39 C57BL/6J

Genomic

NC_000072.7 Reference GRCm39 C57BL/6J

Range

58808440..58897383

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006506696.3 → XP_006506759.1 probable E3 ubiquitin-protein ligase HERC3 isoform X1

See identical proteins and their annotated locations for XP_006506759.1

UniProtKB/TrEMBL

A6H6S0, Q8CFQ0

Conserved Domains (3) summary

COG5184
Location:2 → 331

ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]

cd00078
Location:702 → 1048

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

pfam00415
Location:313 → 377

RCC1; Regulator of chromosome condensation (RCC1) repeat
XM_006506701.5 → XP_006506764.1 probable E3 ubiquitin-protein ligase HERC3 isoform X3

Conserved Domains (2) summary

COG5184
Location:2 → 331

ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]

pfam00415
Location:313 → 377

RCC1; Regulator of chromosome condensation (RCC1) repeat
XM_006506698.5 → XP_006506761.1 probable E3 ubiquitin-protein ligase HERC3 isoform X1

See identical proteins and their annotated locations for XP_006506761.1

UniProtKB/TrEMBL

A6H6S0, Q8CFQ0

Conserved Domains (3) summary

COG5184
Location:2 → 331

ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]

cd00078
Location:702 → 1048

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

pfam00415
Location:313 → 377

RCC1; Regulator of chromosome condensation (RCC1) repeat
XM_030255635.2 → XP_030111495.1 probable E3 ubiquitin-protein ligase HERC3 isoform X2

Conserved Domains (1) summary

cd00078
Location:320 → 666

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
XM_030255634.2 → XP_030111494.1 probable E3 ubiquitin-protein ligase HERC3 isoform X1

UniProtKB/TrEMBL

A6H6S0, Q8CFQ0

Conserved Domains (3) summary

COG5184
Location:2 → 331

ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]

cd00078
Location:702 → 1048

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

pfam00415
Location:313 → 377

RCC1; Regulator of chromosome condensation (RCC1) repeat
XM_006506697.5 → XP_006506760.1 probable E3 ubiquitin-protein ligase HERC3 isoform X1

See identical proteins and their annotated locations for XP_006506760.1

UniProtKB/TrEMBL

A6H6S0, Q8CFQ0

Conserved Domains (3) summary

COG5184
Location:2 → 331

ATS1; Alpha-tubulin suppressor and related RCC1 domain-containing proteins [Cell cycle control, cell division, chromosome partitioning, Cytoskeleton]

cd00078
Location:702 → 1048

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...

pfam00415
Location:313 → 377

RCC1; Regulator of chromosome condensation (RCC1) repeat
XM_036152359.1 → XP_036008252.1 probable E3 ubiquitin-protein ligase HERC3 isoform X2

Conserved Domains (1) summary

cd00078
Location:320 → 666

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
XM_036152360.1 → XP_036008253.1 probable E3 ubiquitin-protein ligase HERC3 isoform X4

Conserved Domains (1) summary

cd00078
Location:280 → 626

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...
XM_011241490.3 → XP_011239792.1 probable E3 ubiquitin-protein ligase HERC3 isoform X5

Conserved Domains (1) summary

cd00078
Location:191 → 537

HECTc; HECT domain; C-terminal catalytic domain of a subclass of Ubiquitin-protein ligase (E3). It binds specific ubiquitin-conjugating enzymes (E2), accepts ubiquitin from E2, transfers ubiquitin to substrate lysine side chains, and transfers additional ...