Nsd3 nuclear receptor binding SET domain protein 3 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Nsd3provided by RGD
Official Full Name: nuclear receptor binding SET domain protein 3provided by RGD
Primary source: RGD:1308980
See related: EnsemblRapid:ENSRNOG00000015621 AllianceGenome:RGD:1308980
Gene type: protein coding
RefSeq status: PROVISIONAL
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Whsc1l1
Summary: Predicted to enable protein-lysine N-methyltransferase activity and transcription regulator activator activity. Predicted to be involved in positive regulation of DNA-templated transcription. Predicted to act upstream of or within chromatin remodeling and negative regulation of DNA-templated transcription. Predicted to be located in chromatin. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in myeloid leukemia. Orthologous to human NSD3 (nuclear receptor binding SET domain protein 3). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Spleen (RPKM 122.1), Adrenal (RPKM 100.7) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 16q12.4

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	16	NC_086034.1 (73056748..73170082, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	16	NC_051351.1 (66354030..66466202, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	16	NC_005115.4 (71126276..71237118, complement)

Chromosome 16 - NC_086034.1 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 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?

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General gene information

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Markers

BM391134 (e-PCR)
- UniSTS:260734

RH133969 (e-PCR)
- UniSTS:217251

BF396304 (e-PCR)
- UniSTS:245738

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables histone H3K27 dimethyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K27 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K27 trimethyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K36 methyltransferase activity	IBA Inferred from Biological aspect of Ancestor more info
enables histone H3K36 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K4 dimethyltransferase activity	ISO Inferred from Sequence Orthology more info
enables histone H3K4 methyltransferase activity	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables transcription regulator activator activity	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within chromatin remodeling	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within negative regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of DNA-templated transcription	ISO Inferred from Sequence Orthology more info
involved_in protein-containing complex organization	IEA Inferred from Electronic Annotation more info
involved_in regulation of DNA-templated transcription	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in chromatin	IBA Inferred from Biological aspect of Ancestor 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

General protein information

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Preferred Names: histone-lysine N-methyltransferase NSD3

Names: Wolf-Hirschhorn syndrome candidate 1-like 1

NP_001099560.1

EC 2.1.1.354

XP_006253369.1

EC 2.1.1.354

XP_006253371.1

EC 2.1.1.354

XP_006253373.1

EC 2.1.1.354

XP_008769572.1

EC 2.1.1.354

XP_038950324.1

EC 2.1.1.354

XP_038950327.1

EC 2.1.1.354

XP_038950328.1

EC 2.1.1.354

XP_038950329.1

EC 2.1.1.354

XP_038950330.1

EC 2.1.1.354

XP_063131314.1

EC 2.1.1.354

XP_063131315.1

EC 2.1.1.354

XP_063131316.1

EC 2.1.1.354

XP_063131317.1

EC 2.1.1.354

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_001106090.1 → NP_001099560.1 histone-lysine N-methyltransferase NSD3

See identical proteins and their annotated locations for NP_001099560.1

Status: PROVISIONAL

Source sequence(s)

CH473970

UniProtKB/TrEMBL

A0A8I5ZLN5, A6IW11, D3ZK47

Related

ENSRNOP00000060879.1, ENSRNOT00000066974.4

Conserved Domains (9) summary

cd05837
Location:268 → 384

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...

cd05838
Location:910 → 1011

WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...

smart00570
Location:1054 → 1104

AWS; associated with SET domains

smart00317
Location:1105 → 1228

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

cd15649
Location:704 → 746

PHD1_NSD3; PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3)

cd15652
Location:752 → 798

PHD2_NSD3; PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3)

cd15658
Location:865 → 904

PHD4_NSD3; PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3)

cd15661
Location:1282 → 1324

PHD5_NSD3; PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3)

cl22851
Location:799 → 851

PHD_SF; PHD finger superfamily

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_086034.1 Reference GRCr8

Range

73056748..73170082 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_039094399.2 → XP_038950327.1 histone-lysine N-methyltransferase NSD3 isoform X1

UniProtKB/TrEMBL

A0A8I5ZLN5

Conserved Domains (10) summary

cd05837
Location:274 → 390

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...

cd05838
Location:966 → 1059

WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...

cd15649
Location:711 → 753

PHD1_NSD3; PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3)

cd15652
Location:759 → 805

PHD2_NSD3; PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3)

cd15658
Location:925 → 960

PHD4_NSD3; PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3)

cd15661
Location:1330 → 1372

PHD5_NSD3; PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3)

cd19212
Location:1152 → 1293

SET_NSD3; SET domain (including post-SET domain) found in nuclear receptor-binding SET domain-containing protein 3 (NSD3) and similar proteins

pfam17907
Location:1112 → 1150

AWS; AWS domain

pfam17982
Location:1371 → 1420

C5HCH; NSD Cys-His rich domain

cl22851
Location:806 → 858

PHD_SF; PHD finger superfamily
XM_063275246.1 → XP_063131316.1 histone-lysine N-methyltransferase NSD3 isoform X8
XM_006253311.5 → XP_006253373.1 histone-lysine N-methyltransferase NSD3 isoform X6

UniProtKB/TrEMBL

A0A8I5ZLN5

Conserved Domains (9) summary

cd05837
Location:274 → 390

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...

cd05838
Location:916 → 1009

WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...

smart00570
Location:1052 → 1102

AWS; associated with SET domains

smart00317
Location:1103 → 1226

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

cd15649
Location:710 → 752

PHD1_NSD3; PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3)

cd15652
Location:758 → 804

PHD2_NSD3; PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3)

cd15658
Location:871 → 910

PHD4_NSD3; PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3)

cd15661
Location:1280 → 1322

PHD5_NSD3; PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3)

cl22851
Location:805 → 857

PHD_SF; PHD finger superfamily
XM_006253309.5 → XP_006253371.1 histone-lysine N-methyltransferase NSD3 isoform X3

UniProtKB/TrEMBL

A0A8I5ZLN5

Conserved Domains (9) summary

cd05837
Location:274 → 390

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...

cd05838
Location:965 → 1058

WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...

smart00570
Location:1101 → 1151

AWS; associated with SET domains

smart00317
Location:1152 → 1264

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

cd15649
Location:710 → 752

PHD1_NSD3; PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3)

cd15652
Location:758 → 804

PHD2_NSD3; PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3)

cd15658
Location:924 → 959

PHD4_NSD3; PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3)

cd15661
Location:1318 → 1360

PHD5_NSD3; PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3)

cl22851
Location:805 → 857

PHD_SF; PHD finger superfamily
XM_006253307.5 → XP_006253369.1 histone-lysine N-methyltransferase NSD3 isoform X4

See identical proteins and their annotated locations for XP_006253369.1

UniProtKB/TrEMBL

A0A0G2K001, A0A8I5ZLN5

Conserved Domains (9) summary

cd05837
Location:274 → 390

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...

cd05838
Location:965 → 1058

WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...

smart00570
Location:1101 → 1151

AWS; associated with SET domains

smart00317
Location:1152 → 1275

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain

cd15649
Location:710 → 752

PHD1_NSD3; PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3)

cd15652
Location:758 → 804

PHD2_NSD3; PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3)

cd15658
Location:924 → 959

PHD4_NSD3; PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3)

cd15661
Location:1329 → 1371

PHD5_NSD3; PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3)

cl22851
Location:805 → 857

PHD_SF; PHD finger superfamily
XM_063275245.1 → XP_063131315.1 histone-lysine N-methyltransferase NSD3 isoform X7
XM_039094402.2 → XP_038950330.1 histone-lysine N-methyltransferase NSD3 isoform X5

UniProtKB/TrEMBL

A0A8I5ZLN5

Conserved Domains (10) summary

cd05837
Location:274 → 390

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...

cd05838
Location:917 → 1010

WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...

cd15649
Location:711 → 753

PHD1_NSD3; PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3)

cd15652
Location:759 → 805

PHD2_NSD3; PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3)

cd15658
Location:872 → 911

PHD4_NSD3; PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3)

cd15661
Location:1281 → 1323

PHD5_NSD3; PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3)

cd19212
Location:1103 → 1244

SET_NSD3; SET domain (including post-SET domain) found in nuclear receptor-binding SET domain-containing protein 3 (NSD3) and similar proteins

pfam17907
Location:1063 → 1101

AWS; AWS domain

pfam17982
Location:1322 → 1371

C5HCH; NSD Cys-His rich domain

cl22851
Location:806 → 858

PHD_SF; PHD finger superfamily
XM_039094401.2 → XP_038950329.1 histone-lysine N-methyltransferase NSD3 isoform X2

UniProtKB/TrEMBL

A0A8I5ZLN5

Conserved Domains (10) summary

cd05837
Location:274 → 390

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...

cd05838
Location:966 → 1059

WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...

cd15649
Location:711 → 753

PHD1_NSD3; PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3)

cd15652
Location:759 → 805

PHD2_NSD3; PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3)

cd15658
Location:925 → 960

PHD4_NSD3; PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3)

cd15661
Location:1319 → 1361

PHD5_NSD3; PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3)

cl40432
Location:1152 → 1282

SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

pfam17907
Location:1112 → 1150

AWS; AWS domain

pfam17982
Location:1360 → 1409

C5HCH; NSD Cys-His rich domain

cl22851
Location:806 → 858

PHD_SF; PHD finger superfamily
XM_039094396.2 → XP_038950324.1 histone-lysine N-methyltransferase NSD3 isoform X1

UniProtKB/TrEMBL

A0A8I5ZLN5

Related

ENSRNOP00000071250.2, ENSRNOT00000088458.3
XM_063275244.1 → XP_063131314.1 histone-lysine N-methyltransferase NSD3 isoform X1
XM_039094400.2 → XP_038950328.1 histone-lysine N-methyltransferase NSD3 isoform X1

UniProtKB/TrEMBL

A0A8I5ZLN5

Conserved Domains (10) summary

cd05837
Location:274 → 390

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...

cd05838
Location:966 → 1059

WHSC1_related; The PWWP domain was first identified in the WHSC1 (Wolf-Hirschhorn syndrome candidate 1) protein, a protein implicated in Wolf-Hirschhorn syndrome (WHS). When translocated, WHSC1 plays a role in lymphoid multiple myeloma (MM) disease, also known as ...

cd15649
Location:711 → 753

PHD1_NSD3; PHD finger 1 found in nuclear SET domain-containing protein 3 (NSD3)

cd15652
Location:759 → 805

PHD2_NSD3; PHD finger 2 found in nuclear SET domain-containing protein 3 (NSD3)

cd15658
Location:925 → 960

PHD4_NSD3; PHD finger 4 found in nuclear SET domain-containing protein 3 (NSD3)

cd15661
Location:1330 → 1372

PHD5_NSD3; PHD finger 5 found in nuclear SET domain-containing protein 3 (NSD3)

cd19212
Location:1152 → 1293

SET_NSD3; SET domain (including post-SET domain) found in nuclear receptor-binding SET domain-containing protein 3 (NSD3) and similar proteins

pfam17907
Location:1112 → 1150

AWS; AWS domain

pfam17982
Location:1371 → 1420

C5HCH; NSD Cys-His rich domain

cl22851
Location:806 → 858

PHD_SF; PHD finger superfamily
XM_063275247.1 → XP_063131317.1 histone-lysine N-methyltransferase NSD3 isoform X9
XM_008771350.3 → XP_008769572.1 histone-lysine N-methyltransferase NSD3 isoform X10

UniProtKB/TrEMBL

A0A8I5ZK70

Related

ENSRNOP00000076954.1, ENSRNOT00000119483.2

Conserved Domains (1) summary

cd05837
Location:274 → 390

MSH6_like; The PWWP domain is present in MSH6, a mismatch repair protein homologous to bacterial MutS. The PWWP domain of histone-lysine N-methyltransferase, also known as Nuclear SET domain-containing protein 3, is also included. Mutations in MSH6 have been ...