NRM

Summary

NRM (nurim, HGNC:8003) is a protein-coding gene on chromosome 6p21.33, encoding Nurim (Q8IXM6).

The protein encoded by this gene contains transmembrane domains and resides within the inner nuclear membrane, where it is tightly associated with the nucleus. This protein shares homology with isoprenylcysteine carboxymethyltransferase enzymes. Alternative splicing results in multiple transcript variants that encode different protein isoforms.

Source: NCBI Gene 11270 — RefSeq curated summary.

At a glance

• GWAS associations: 22
• Clinical variants (ClinVar): 32 total
• MANE Select transcript: NM_001384369

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:8003
Approved symbol	NRM
Name	nurim
Location	6p21.33
Locus type	gene with protein product
Status	Approved
Aliases	NRM29
Ensembl gene	ENSG00000137404
Ensembl biotype	protein_coding
OMIM	620017
Entrez	11270

Gene structure

Transcript identifiers

Ensembl transcripts: 12 — 7 protein_coding, 5 protein_coding_CDS_not_defined

ENST00000259953, ENST00000376420, ENST00000376421, ENST00000444096, ENST00000462857, ENST00000470733, ENST00000474864, ENST00000482141, ENST00000495946, ENST00000866727, ENST00000921005, ENST00000921006

RefSeq mRNA: 6 — MANE Select: NM_001384369 NM_001270707, NM_001270708, NM_001270709, NM_001270710, NM_001384369, NM_007243

CCDS: CCDS4686, CCDS59498

Canonical transcript exons

ENST00000376421 — 4 exons

Exon	Start	End
ENSE00001673381	30688049	30688942
ENSE00001692301	30690047	30690243
ENSE00002239027	30690842	30690984
ENSE00003541612	30689276	30689452

Expression profiles

Bgee: expression breadth ubiquitous, 136 present calls, max score 90.86.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 28.8090 / max 178.4199, expressed in 1794 samples.

FANTOM5 promoters (2 alternative TSS)

Promoter ID	TPM avg	Samples expressed
72582	28.5300	1794
72581	0.2790	116

Top tissues by expression

137 total, by Bgee expression score (0-100, higher = more expressed):

Tissue	Anatomy ID	Expression score	Quality
embryo	UBERON:0000922	90.86	gold quality
ganglionic eminence	UBERON:0004023	90.86	gold quality
blood	UBERON:0000178	90.28	gold quality
granulocyte	CL:0000094	89.60	gold quality
body of uterus	UBERON:0009853	88.99	gold quality
descending thoracic aorta	UBERON:0002345	88.72	gold quality
ectocervix	UBERON:0012249	88.63	gold quality
ventricular zone	UBERON:0003053	87.99	gold quality
leukocyte	CL:0000738	87.94	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	87.84	gold quality
monocyte	CL:0000576	87.62	gold quality
apex of heart	UBERON:0002098	87.62	gold quality
thoracic aorta	UBERON:0001515	87.29	gold quality
ascending aorta	UBERON:0001496	87.17	gold quality
myometrium	UBERON:0001296	87.13	gold quality
endocervix	UBERON:0000458	86.90	gold quality
left uterine tube	UBERON:0001303	86.78	gold quality
uterine cervix	UBERON:0000002	86.47	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	86.28	gold quality
right ovary	UBERON:0002118	86.14	gold quality
right coronary artery	UBERON:0001625	86.04	gold quality
placenta	UBERON:0001987	86.04	gold quality
smooth muscle tissue	UBERON:0001135	85.98	gold quality
mucosa of transverse colon	UBERON:0004991	85.98	gold quality
left coronary artery	UBERON:0001626	85.93	gold quality
right lung	UBERON:0002167	85.86	gold quality
stromal cell of endometrium	CL:0002255	85.60	gold quality
vagina	UBERON:0000996	85.55	gold quality
popliteal artery	UBERON:0002250	85.40	gold quality
tibial artery	UBERON:0007610	85.39	gold quality

Single-cell (SCXA)

Detected in 2 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-MTAB-4850	no	292.43
E-ANND-3	no	2.28

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

27 targeting NRM, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNA	Max score	Avg score	miRNA target_count
HSA-MIR-671-5P	99.52	67.11	1277
HSA-MIR-513C-5P	99.50	68.42	1730
HSA-MIR-514B-5P	99.50	68.19	1766
HSA-MIR-5697	99.39	67.74	1249
HSA-MIR-4316	99.37	65.75	1360
HSA-MIR-6731-5P	99.28	67.42	2375
HSA-MIR-8085	99.28	67.56	2362
HSA-MIR-5693	99.24	66.67	1106
HSA-MIR-3074-5P	98.82	66.56	1414
HSA-MIR-4710	98.61	65.96	1048
HSA-MIR-138-5P	98.43	70.49	1292
HSA-MIR-541-5P	98.24	67.77	1181
HSA-MIR-1233-5P	98.19	66.71	1201
HSA-MIR-6778-5P	98.19	66.59	1239
HSA-MIR-3664-3P	97.85	67.62	1452
HSA-MIR-7855-5P	97.39	67.18	925
HSA-MIR-194-3P	97.36	65.96	1027
HSA-MIR-2278	97.30	66.19	1130
HSA-MIR-4800-5P	97.22	65.91	324
HSA-MIR-3184-3P	96.96	66.91	845
HSA-MIR-617	96.79	65.96	738
HSA-MIR-3918	96.13	64.65	1300
HSA-MIR-6734-5P	95.70	65.56	950
HSA-MIR-659-5P	95.36	65.00	300
HSA-MIR-2861	95.24	65.47	1056
HSA-MIR-3197	94.02	63.47	85
HSA-MIR-4444	92.67	67.92	56

Literature-anchored findings (GeneRIF, showing 2)

• nurim is a polytopic protein tightly associated with the inner nuclear membrane (PMID:15542857)
• these findings implicate that the inner nuclear membrane protein Nurim plays an important role in the suppression of apoptosis (PMID:23092226)

Cross-species orthologs

3 orthologs

Organism	Symbol	Gene ID
danio_rerio	nrm	ENSDARG00000063690
mus_musculus	Nrm	ENSMUSG00000059791
drosophila_melanogaster	CG7655	FBGN0038536

Protein

Protein identifiers

Nurim — Q8IXM6 (reviewed: Q8IXM6)

Alternative names: Nuclear envelope membrane protein, Nuclear rim protein

All UniProt accessions (3): Q8IXM6, A0A1U9X845, H0Y6T6

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Nucleus inner membrane.

Similarity. Belongs to the nurim family.

Isoforms (3)

UniProt ID	Names	Canonical?
Q8IXM6-1	1, a	yes
Q8IXM6-2	2, b
Q8IXM6-6	3, c

RefSeq proteins (6): NP_001257636, NP_001257637, NP_001257638, NP_001257639, NP_001371298, NP_009174 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR033580	Nurim-like	Family

UniProt features (17 total): topological domain 7, transmembrane region 6, splice variant 3, chain 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q8IXM6-F1	89.62	0.68

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 126 (showing top): GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_DN, PATIL_LIVER_CANCER, FUJII_YBX1_TARGETS_DN, MODULE_397, GOCC_NUCLEAR_ENVELOPE, GOCC_ORGANELLE_INNER_MEMBRANE, MARSON_BOUND_BY_E2F4_UNSTIMULATED, GOCC_NUCLEAR_INNER_MEMBRANE, GOCC_NUCLEAR_MEMBRANE, GOCC_ORGANELLE_ENVELOPE, FEVR_CTNNB1_TARGETS_DN, VANOEVELEN_MYOGENESIS_SIN3A_TARGETS, CRX_DN.V1_UP, CRX_NRL_DN.V1_UP, RB_P107_DN.V1_UP

GO Biological Process (0):

GO Molecular Function (1): protein binding (GO:0005515)

GO Cellular Component (5): nuclear envelope (GO:0005635), nuclear inner membrane (GO:0005637), membrane (GO:0016020), nuclear membrane (GO:0031965), nucleus (GO:0005634)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
nucleus	2
binding	1
endomembrane system	1
organelle envelope	1
organelle inner membrane	1
nuclear membrane	1
cellular anatomical structure	1
nuclear envelope	1
organelle membrane	1
intracellular membrane-bounded organelle	1

Protein interactions and networks

STRING

538 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
NRM	LBR	Q14739	645
NRM	EMD	P50402	621
NRM	LEMD3	Q9Y2U8	575
NRM	LMNB1	P20700	554
NRM	LMNB2	Q03252	551
NRM	SUN2	Q9UH99	540
NRM	C6orf136	Q5SQH8	518
NRM	SUN1	O94901	488
NRM	SUN3	Q8TAQ9	452
NRM	GNL1	P36915	448
NRM	TCF19	Q9Y242	435
NRM	GTF2H4	Q92759	429
NRM	ABCF1	Q8NE71	416
NRM	BANF1	O75531	411
NRM	GML	Q99445	407

IntAct

191 interactions, top by confidence:

A	B	Type	Score
TRIM59	NRM	psi-mi:“MI:0915”(physical association)	0.780
NRM	TRIM59	psi-mi:“MI:0915”(physical association)	0.780
TMUB1	ERLIN2	psi-mi:“MI:0914”(association)	0.660
CREB3L1	NRM	psi-mi:“MI:0915”(physical association)	0.560
SUN2	NRM	psi-mi:“MI:0915”(physical association)	0.560
NRM	SUN2	psi-mi:“MI:0915”(physical association)	0.560
NRM	RTP4	psi-mi:“MI:0915”(physical association)	0.560
NRM	PCDHGA4	psi-mi:“MI:0915”(physical association)	0.560
NRM	EBP	psi-mi:“MI:0915”(physical association)	0.560
NRM	LEPROTL1	psi-mi:“MI:0915”(physical association)	0.560
NRM	SLC39A2	psi-mi:“MI:0915”(physical association)	0.560
NRM	AQP2	psi-mi:“MI:0915”(physical association)	0.560
NRM	SLC6A15	psi-mi:“MI:0915”(physical association)	0.560
NRM	GPR151	psi-mi:“MI:0915”(physical association)	0.560
NRM	MRM1	psi-mi:“MI:0915”(physical association)	0.560
NRM	TMX2	psi-mi:“MI:0915”(physical association)	0.560

BioGRID (79): SUN2 (Two-hybrid), CREB3L1 (Two-hybrid), TRIM59 (Two-hybrid), NRM (Affinity Capture-MS), CRNN (Affinity Capture-MS), NRM (Affinity Capture-MS), ZG16B (Affinity Capture-MS), NRM (Affinity Capture-MS), NRM (Affinity Capture-MS), NRM (Two-hybrid), NRM (Two-hybrid), NRM (Two-hybrid), NRM (Two-hybrid), NRM (Two-hybrid), NRM (Two-hybrid)

ESM2 similar proteins: A0JP80, A1A5Z0, A5D6W6, A7YWN2, B2MVP8, B6CZ46, L5KLU7, O42153, O75783, O75908, O77759, O88908, P58872, P58873, P86243, Q1HG44, Q1KZG0, Q1XHX8, Q32LM8, Q49LS7, Q52KL1, Q5CZN0, Q5KR61, Q5T197, Q5TM67, Q5XIL6, Q6AX73, Q6AZ83, Q6MG14, Q6NSQ9, Q6P5W5, Q767L9, Q7TNJ2, Q7TQM4, Q80YU0, Q86VD9, Q8AVI9, Q8CIP5, Q8IWX5, Q8IXM6

Diamond homologs: A0A0F6P9C0, B1WZQ6, O05883, P87014, Q1XHX8, Q5TM67, Q6MG14, Q767L9, Q89I98, Q89V40, Q8IXM6, Q8VC65, W6VBF4, Q1L911, Q296J9, Q32LM8, Q6GNM0, Q9VEG9, P32584

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

32 variants total. Per-class counts are floors (≥ shown; pagination cap):

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	26
Likely benign	5
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

714 predictions. Top by Δscore:

Variant	Effect	Δscore
6:30689449:CCAG:C	acceptor_gain	1.0000
6:30689450:CAGC:C	acceptor_gain	1.0000
6:30691147:T:TA	donor_gain	1.0000
6:30688939:ATACC:A	acceptor_loss	0.9900
6:30688940:TACC:T	acceptor_loss	0.9900
6:30688943:C:A	acceptor_loss	0.9900
6:30688944:T:A	acceptor_loss	0.9900
6:30689450:CAG:C	acceptor_gain	0.9900
6:30689453:C:CC	acceptor_gain	0.9900
6:30690254:T:C	acceptor_gain	0.9900
6:30690847:C:CT	donor_gain	0.9900
6:30690848:C:CT	donor_gain	0.9900
6:30691103:T:TA	donor_gain	0.9900
6:30691125:T:TA	donor_gain	0.9900
6:30691126:C:A	donor_gain	0.9900
6:30689448:ACCAG:A	acceptor_gain	0.9800
6:30689449:CCAGC:C	acceptor_gain	0.9800
6:30689451:AGC:A	acceptor_loss	0.9800
6:30689452:GCTGT:G	acceptor_loss	0.9800
6:30689453:CT:C	acceptor_loss	0.9800
6:30689454:T:A	acceptor_loss	0.9800
6:30690241:CAT:C	acceptor_gain	0.9800
6:30690242:ATCT:A	acceptor_loss	0.9800
6:30690244:C:CA	acceptor_loss	0.9800
6:30690244:C:CC	acceptor_gain	0.9800
6:30690245:T:A	acceptor_loss	0.9800
6:30690254:T:TC	acceptor_gain	0.9800
6:30691090:C:CT	donor_gain	0.9800
6:30690253:G:GC	acceptor_gain	0.9700
6:30690805:T:A	donor_gain	0.9700

AlphaMissense

1644 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
6:30689321:G:C	S154R	0.998
6:30689321:G:T	S154R	0.998
6:30689323:T:G	S154R	0.998
6:30689279:T:A	K168N	0.997
6:30689279:T:G	K168N	0.997
6:30689304:T:A	D160V	0.997
6:30689338:A:G	W149R	0.997
6:30689338:A:T	W149R	0.997
6:30688828:A:G	W208R	0.996
6:30688828:A:T	W208R	0.996
6:30688898:C:A	K184N	0.996
6:30688898:C:G	K184N	0.996
6:30689280:T:A	K168I	0.996
6:30689287:C:G	G166R	0.996
6:30689304:T:G	D160A	0.995
6:30689305:C:G	D160H	0.994
6:30689303:G:C	D160E	0.993
6:30689303:G:T	D160E	0.993
6:30689305:C:A	D160Y	0.993
6:30689362:A:G	C141R	0.993
6:30689292:A:G	L164P	0.991
6:30688860:T:C	H197R	0.990
6:30690084:C:A	R98M	0.990
6:30688861:G:C	H197D	0.989
6:30689287:C:A	G166C	0.988
6:30689435:C:A	W116C	0.988
6:30689435:C:G	W116C	0.988
6:30688737:T:A	D238V	0.987
6:30688864:G:T	R196S	0.987
6:30690891:A:C	F28L	0.987

dbSNP variants (sampled 300 via entrez): RS1002322612 (6:30691176 T>C), RS1004005392 (6:30692238 C>T), RS1004067064 (6:30692936 G>A), RS1005031678 (6:30688402 T>G), RS1005569430 (6:30693096 G>A), RS1005683947 (6:30693374 C>G), RS1007075984 (6:30690353 G>A,T), RS1007429056 (6:30688859 G>A,T), RS1008082113 (6:30692072 A>G,T), RS1008460150 (6:30690191 G>A,T), RS1009918633 (6:30689893 T>G), RS1010610160 (6:30691915 C>G,T), RS1010887315 (6:30689617 G>C), RS1011795871 (6:30691443 G>A), RS1013104977 (6:30687795 C>T)

Disease associations

OMIM: gene MIM:620017 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

22 associations (top):

Study	Trait	p-value
GCST003538_2	Alcohol dependence symptom count	3.000000e-10
GCST004521_114	Autism spectrum disorder or schizophrenia	3.000000e-17
GCST004521_117	Autism spectrum disorder or schizophrenia	3.000000e-15
GCST004521_121	Autism spectrum disorder or schizophrenia	3.000000e-13
GCST004521_132	Autism spectrum disorder or schizophrenia	2.000000e-09
GCST004521_171	Autism spectrum disorder or schizophrenia	4.000000e-14
GCST004521_2	Autism spectrum disorder or schizophrenia	2.000000e-16
GCST004521_209	Autism spectrum disorder or schizophrenia	5.000000e-16
GCST004521_210	Autism spectrum disorder or schizophrenia	5.000000e-15
GCST004521_211	Autism spectrum disorder or schizophrenia	5.000000e-15
GCST004521_263	Autism spectrum disorder or schizophrenia	7.000000e-17
GCST004521_265	Autism spectrum disorder or schizophrenia	7.000000e-14
GCST004521_269	Autism spectrum disorder or schizophrenia	7.000000e-11
GCST004521_295	Autism spectrum disorder or schizophrenia	6.000000e-18
GCST004521_3	Autism spectrum disorder or schizophrenia	2.000000e-15
GCST004521_48	Autism spectrum disorder or schizophrenia	1.000000e-09
GCST004521_56	Autism spectrum disorder or schizophrenia	1.000000e-22
GCST004521_70	Autism spectrum disorder or schizophrenia	8.000000e-20
GCST004521_79	Autism spectrum disorder or schizophrenia	1.000000e-16
GCST004861_77	Itch intensity from mosquito bite	2.000000e-08
GCST007326_6	Number of sexual partners	2.000000e-08
GCST008053_76	Height	2.000000e-09

EFO canonical traits (2, from GWAS)

EFO ID	Trait name
EFO:0007835	alcohol dependence measurement
EFO:0008377	mosquito bite reaction itch intensity measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

CTD chemical–gene interactions

36 total (human), top 30 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
sodium arsenite	affects expression, decreases expression, increases abundance, increases expression	4
bisphenol A	affects expression, decreases methylation	2
Air Pollutants	decreases expression, increases abundance	2
Arsenic	decreases expression, increases abundance, increases expression	2
GSK-J4	decreases expression	1
FR900359	increases phosphorylation	1
triphenyl phosphate	affects expression	1
pirinixic acid	affects binding, decreases expression, increases activity	1
beta-lapachone	decreases expression	1
tris(1,3-dichloro-2-propyl)phosphate	decreases expression	1
perfluorooctanoic acid	decreases expression	1
zinc chromate	decreases expression, increases abundance	1
2,3-bis(3’-hydroxybenzyl)butyrolactone	affects cotreatment, increases expression	1
phenethyl isothiocyanate	decreases expression	1
chromium hexavalent ion	decreases expression, increases abundance	1
K 7174	decreases expression	1
jinfukang	increases expression	1
(+)-JQ1 compound	decreases expression	1
Resveratrol	affects cotreatment, increases expression	1
Leflunomide	decreases expression	1
Benzo(a)pyrene	increases expression	1
Cadmium	decreases expression, increases abundance	1
Calcitriol	affects cotreatment, decreases expression	1
Carbamazepine	affects expression	1
Coumestrol	increases expression, affects cotreatment	1
Dichlorodiphenyl Dichloroethylene	increases expression	1
Testosterone	affects cotreatment, decreases expression	1
Tetrachlorodibenzodioxin	affects expression	1
Dronabinol	increases expression	1
Thimerosal	decreases expression	1

Clinical trials (associated diseases)

0 trials via MONDO — disease-level, not drug-specific.