NCMAP

Summary

NCMAP (non-compact myelin associated protein, HGNC:29332) is a protein-coding gene on chromosome 1p36.11, encoding Noncompact myelin-associated protein (Q5T1S8). Plays a role in myelin formation.

Predicted to be a structural constituent of myelin sheath. Predicted to be involved in peripheral nervous system myelin formation and positive regulation of myelination. Predicted to be located in plasma membrane. Predicted to be active in Schmidt-Lanterman incisure and paranode region of axon.

Source: NCBI Gene 400746 — RefSeq curated summary.

At a glance

• GWAS associations: 3
• Clinical variants (ClinVar): 27 total
• MANE Select transcript: NM_001010980

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:29332
Approved symbol	NCMAP
Name	non-compact myelin associated protein
Location	1p36.11
Locus type	gene with protein product
Status	Approved
Aliases	FLJ42528, MP11
Ensembl gene	ENSG00000184454
Ensembl biotype	protein_coding
Entrez	400746

Gene structure

Transcript identifiers

Ensembl transcripts: 6 — 5 protein_coding, 1 protein_coding_CDS_not_defined

ENST00000374392, ENST00000486262, ENST00000870896, ENST00000870897, ENST00000952399, ENST00000952400

RefSeq mRNA: 1 — MANE Select: NM_001010980 NM_001010980

CCDS: CCDS30632

Canonical transcript exons

ENST00000374392 — 4 exons

Exon	Start	End
ENSE00001463400	24605606	24609328
ENSE00001463401	24595424	24595512
ENSE00001463402	24556087	24556169
ENSE00003626990	24600940	24601024

Expression profiles

Bgee: expression breadth ubiquitous, 104 present calls, max score 92.07.

FANTOM5 (CAGE): breadth tissue_specific, TPM avg 0.5421 / max 62.8852, expressed in 157 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter ID	TPM avg	Samples expressed
1406	0.3773	135
1407	0.1003	25
1409	0.0494	17
1408	0.0150	10

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
tibial nerve	UBERON:0001323	92.07	gold quality
sural nerve	UBERON:0015488	83.46	gold quality
islet of Langerhans	UBERON:0000006	80.39	gold quality
pancreas	UBERON:0001264	78.85	gold quality
body of pancreas	UBERON:0001150	77.87	gold quality
gall bladder	UBERON:0002110	77.86	gold quality
duodenum	UBERON:0002114	73.68	gold quality
saliva-secreting gland	UBERON:0001044	73.17	gold quality
minor salivary gland	UBERON:0001830	72.74	gold quality
placenta	UBERON:0001987	68.78	gold quality
pituitary gland	UBERON:0000007	67.19	gold quality
body of stomach	UBERON:0001161	66.85	gold quality
stomach	UBERON:0000945	66.39	gold quality
liver	UBERON:0002107	66.10	gold quality
fundus of stomach	UBERON:0001160	65.81	gold quality
adenohypophysis	UBERON:0002196	65.65	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	64.56	gold quality
right lobe of liver	UBERON:0001114	63.32	gold quality
mucosa of transverse colon	UBERON:0004991	62.95	gold quality
right lobe of thyroid gland	UBERON:0001119	62.74	gold quality
endometrium	UBERON:0001295	61.99	gold quality
thyroid gland	UBERON:0002046	61.77	gold quality
tonsil	UBERON:0002372	61.68	gold quality
left lobe of thyroid gland	UBERON:0001120	61.02	gold quality
lung	UBERON:0002048	59.72	gold quality
upper lobe of left lung	UBERON:0008952	58.81	gold quality
hindlimb stylopod muscle	UBERON:0004252	58.64	gold quality
prostate gland	UBERON:0002367	57.37	gold quality
colonic epithelium	UBERON:0000397	56.32	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	55.67	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 1.

Experiment	Marker?	Max mean expression
E-ANND-3	yes	11.34

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

91 targeting NCMAP, 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-3613-3P	100.00	76.36	7965
HSA-MIR-450A-1-3P	100.00	69.33	1837
HSA-MIR-3120-5P	100.00	65.56	965
HSA-MIR-371B-5P	99.99	75.34	4759
HSA-MIR-1184	99.99	68.19	1458
HSA-MIR-186-5P	99.99	70.83	3707
HSA-MIR-373-5P	99.98	75.36	4753
HSA-MIR-616-5P	99.98	75.58	4775
HSA-MIR-6888-3P	99.97	65.95	1170
HSA-MIR-3148	99.97	75.06	6478
HSA-MIR-6778-3P	99.96	67.29	2693
HSA-MIR-22-3P	99.93	68.13	917
HSA-MIR-515-5P	99.92	69.82	2343
HSA-MIR-519E-5P	99.92	69.62	2358
HSA-MIR-6809-3P	99.91	71.45	3814
HSA-MIR-4447	99.85	67.81	2900
HSA-MIR-4503	99.85	71.45	1869
HSA-MIR-6079	99.84	68.54	1170
HSA-MIR-3133	99.81	70.92	3506
HSA-MIR-4668-5P	99.79	70.58	3782
HSA-MIR-1283	99.69	72.42	3009
HSA-MIR-1251-3P	99.64	67.21	1408
HSA-MIR-4663	99.62	65.33	957
HSA-MIR-4756-3P	99.62	66.30	1319
HSA-MIR-6832-5P	99.58	64.82	1132
HSA-MIR-4472	99.56	66.08	1478
HSA-MIR-4437	99.52	65.29	1266
HSA-MIR-302B-5P	99.50	69.49	1857
HSA-MIR-302D-5P	99.50	69.34	1863
HSA-MIR-508-5P	99.41	64.25	1248

Literature-anchored findings (GeneRIF, showing 1)

• This study identified an evolutionarily conserved novel component of myelin called Mp11. The Mp11 genomic locus contains multiple conserved Egr binding sites, and Mp11 induction is regulated by the expression of Egr2 and expression in peripheral nerve. (PMID:18650334)

Cross-species orthologs

2 orthologs

Organism	Symbol	Gene ID
mus_musculus	Ncmap	ENSMUSG00000043924
rattus_norvegicus	Ncmap	ENSRNOG00000048139

Protein

Protein identifiers

Noncompact myelin-associated protein — Q5T1S8 (reviewed: Q5T1S8)

Alternative names: Myelin protein of 11 kDa

All UniProt accessions (1): Q5T1S8

UniProt curated annotations — full annotation on UniProt →

Function. Plays a role in myelin formation.

Subcellular location. Cell membrane.

Post-translational modifications. Glycosylated.

RefSeq proteins (1): NP_001010980* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR038940	NCMAP	Family

UniProt features (6 total): topological domain 2, chain 1, transmembrane region 1, region of interest 1, compositionally biased region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q5T1S8-F1	65.76	0.17

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 114 (showing top): GOBP_GLIAL_CELL_DEVELOPMENT, GOBP_NEUROGENESIS, GOBP_REGULATION_OF_MYELINATION, GOBP_REGULATION_OF_NERVOUS_SYSTEM_DEVELOPMENT, GOBP_CELLULAR_COMPONENT_ASSEMBLY_INVOLVED_IN_MORPHOGENESIS, GOBP_ENSHEATHMENT_OF_NEURONS, GOBP_POSITIVE_REGULATION_OF_NERVOUS_SYSTEM_PROCESS, GOBP_REGULATION_OF_NERVOUS_SYSTEM_PROCESS, GOBP_REGULATION_OF_SYSTEM_PROCESS, GOBP_MYELIN_ASSEMBLY, GOCC_NEURON_PROJECTION, GOBP_SCHWANN_CELL_DIFFERENTIATION, GOBP_GLIAL_CELL_DIFFERENTIATION, GOBP_PERIPHERAL_NERVOUS_SYSTEM_DEVELOPMENT, GOBP_POSITIVE_REGULATION_OF_MYELINATION

GO Biological Process (3): positive regulation of myelination (GO:0031643), peripheral nervous system myelin formation (GO:0032290), regulation of myelination (GO:0031641)

GO Molecular Function (1): structural constituent of myelin sheath (GO:0019911)

GO Cellular Component (4): plasma membrane (GO:0005886), paranode region of axon (GO:0033270), Schmidt-Lanterman incisure (GO:0043220), membrane (GO:0016020)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
cellular anatomical structure	3
myelination	2
regulation of myelination	1
positive regulation of nervous system process	1
positive regulation of cellular process	1
myelination in peripheral nervous system	1
myelin assembly	1
regulation of cellular process	1
regulation of nervous system development	1
structural molecule activity	1
myelin sheath	1
membrane	1
cell periphery	1
main axon	1
compact myelin	1

Protein interactions and networks

STRING

292 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
NCMAP	LIM2	P55344	602
NCMAP	PMP2	P02689	511
NCMAP	HAO1	Q9UJM8	509
NCMAP	CLDN19	Q8N6F1	456
NCMAP	CYCS	P00001	446
NCMAP	FAM180A	Q6UWF9	400
NCMAP	MIP	P30301	398
NCMAP	MB	P02144	370
NCMAP	MAP7D3	Q8IWC1	365
NCMAP	SLC35G1	Q2M3R5	343
NCMAP	FAM216A	Q8WUB2	325
NCMAP	CLEC3A	O75596	315
NCMAP	NEU2	Q9Y3R4	314
NCMAP	FABP7	O15540	300
NCMAP	ABT1	Q9ULW3	297
NCMAP	PRX	Q9BXM0	297

IntAct

0 interactions, top by confidence:

ESM2 similar proteins: A0A5F4BST2, A5PJC7, A8MWV9, D3ZZP4, O14836, P0CAN6, P11911, P11912, P14753, Q01114, Q07303, Q13113, Q2KI80, Q2KL21, Q3TS39, Q3URD2, Q4V9L6, Q5F267, Q5FVJ4, Q5FVQ7, Q5RA41, Q5T1S8, Q6P9G4, Q6UWJ8, Q6UX34, Q80VJ8, Q810F0, Q86XR5, Q8BRJ3, Q8BX43, Q8K064, Q8K5A9, Q8N112, Q8N4K4, Q8N6L0, Q8NBR0, Q8NC24, Q8QZT4, Q8R138, Q923S2

Diamond homologs: F1M2Z5, Q5T1S8, Q99JS0

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	18
Likely benign	2
Benign	0

Top pathogenic / likely-pathogenic (0)

SpliceAI

752 predictions. Top by Δscore:

Variant	Effect	Δscore
1:24595491:G:T	donor_gain	1.0000
1:24595511:GA:G	donor_gain	1.0000
1:24595513:G:GG	donor_gain	1.0000
1:24600935:T:A	acceptor_gain	1.0000
1:24600937:TA:T	acceptor_loss	1.0000
1:24600938:A:AG	acceptor_gain	1.0000
1:24600938:A:AT	acceptor_loss	1.0000
1:24600938:AG:A	acceptor_gain	1.0000
1:24600939:G:GA	acceptor_gain	1.0000
1:24600939:GG:G	acceptor_gain	1.0000
1:24600939:GGT:G	acceptor_gain	1.0000
1:24600939:GGTT:G	acceptor_gain	1.0000
1:24600939:GGTTC:G	acceptor_gain	1.0000
1:24601021:ACAGG:A	donor_loss	1.0000
1:24601022:CAGGT:C	donor_loss	1.0000
1:24601023:AGGT:A	donor_loss	1.0000
1:24601025:GTA:G	donor_loss	1.0000
1:24601026:T:A	donor_loss	1.0000
1:24556165:AGCAG:A	donor_loss	0.9900
1:24556166:GCAG:G	donor_gain	0.9900
1:24556167:CAGG:C	donor_loss	0.9900
1:24556168:AGGT:A	donor_loss	0.9900
1:24556169:GGTAG:G	donor_loss	0.9900
1:24556170:GTAG:G	donor_loss	0.9900
1:24556171:T:G	donor_loss	0.9900
1:24595418:CATCA:C	acceptor_loss	0.9900
1:24595419:ATCAG:A	acceptor_gain	0.9900
1:24595420:TCAG:T	acceptor_loss	0.9900
1:24595421:CA:C	acceptor_loss	0.9900
1:24595422:A:AG	acceptor_gain	0.9900

AlphaMissense

655 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
1:24600958:C:A	A34D	0.993
1:24600961:C:A	A35D	0.989
1:24600955:T:A	V33D	0.981
1:24600964:T:A	V36D	0.976
1:24600960:G:C	A35P	0.972
1:24601009:T:C	L51P	0.971
1:24600976:T:A	V40D	0.970
1:24595512:A:C	S28R	0.968
1:24600941:T:A	S28R	0.968
1:24600941:T:G	S28R	0.968
1:24600952:T:A	I32N	0.968
1:24600945:G:A	G30R	0.965
1:24600945:G:C	G30R	0.965
1:24600957:G:C	A34P	0.965
1:24600997:T:A	V47D	0.964
1:24601013:G:C	K52N	0.963
1:24601013:G:T	K52N	0.963
1:24600949:C:A	A31D	0.962
1:24600970:T:A	V38E	0.959
1:24601011:A:G	K52E	0.958
1:24600946:G:A	G30E	0.955
1:24601000:T:C	L48P	0.955
1:24601000:T:G	L48R	0.947
1:24600967:T:A	V37E	0.946
1:24600979:T:A	I41N	0.940
1:24600973:T:A	V39D	0.933
1:24605606:G:C	R56S	0.931
1:24605606:G:T	R56S	0.931
1:24600948:G:C	A31P	0.923
1:24601000:T:A	L48Q	0.918

dbSNP variants (sampled 300 via entrez): RS1000044625 (1:24594652 A>G), RS1000095640 (1:24554475 G>A), RS1000216218 (1:24561933 G>A), RS1000222120 (1:24557394 CAT>C), RS1000222964 (1:24571822 G>A), RS1000310850 (1:24561639 G>A,T), RS1000332013 (1:24592641 A>G), RS1000338542 (1:24599971 T>C), RS1000443940 (1:24605869 T>C,G), RS1000503876 (1:24556511 T>C,G), RS1000567607 (1:24577601 C>G), RS1000656122 (1:24603022 A>T), RS1000685967 (1:24583583 G>A,C), RS1000716527 (1:24609053 G>T), RS1000722244 (1:24604742 G>C)

Disease associations

OMIM: gene `` | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

3 associations (top):

Study	Trait	p-value
GCST006661_182	Male-pattern baldness	1.000000e-10
GCST006661_57	Male-pattern baldness	4.000000e-09
GCST012299_14	Schizophrenia, bipolar disorder or major depressive disorder x sex interaction (3df)	1.000000e-05

EFO canonical traits (1, from GWAS)

EFO ID	Trait name
EFO:0008343	sex interaction measurement

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

PharmGKB variants

1 variants.

Variant	Genes	Level	Score	#Clin annots	Drugs
rs4553122	NCMAP		0.00	0

CTD chemical–gene interactions

13 total (human), top 13 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
tris(2-butoxyethyl) phosphate	affects expression	1
abrine	decreases expression	1
Resveratrol	decreases expression, affects cotreatment	1
Acetaminophen	decreases expression	1
Atrazine	increases expression	1
Benzo(a)pyrene	affects methylation	1
Plant Extracts	affects cotreatment, decreases expression	1
Progesterone	affects expression, increases reaction	1
Tobacco Smoke Pollution	increases expression	1
Urethane	decreases expression	1
Zearalenone	increases expression	1
Mifepristone	affects expression, increases reaction	1
Genistein	increases expression	1

Clinical trials (associated diseases)

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