NPIPB15

Summary

NPIPB15 (nuclear pore complex interacting protein family member B15, HGNC:34409) is a protein-coding gene on chromosome 16q23.1, encoding Nuclear pore complex-interacting protein family member B15 (A6NHN6).

Predicted to be located in extracellular region.

Source: NCBI Gene 440348 — RefSeq curated summary.

At a glance

• MANE Select transcript: NM_001306094

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:34409
Approved symbol	NPIPB15
Name	nuclear pore complex interacting protein family member B15
Location	16q23.1
Locus type	gene with protein product
Status	Approved
Aliases	LOC440348
Ensembl gene	ENSG00000196436
Ensembl biotype	protein_coding
Entrez	440348

Gene structure

Transcript identifiers

Ensembl transcripts: 3 — 2 protein_coding, 1 retained_intron

ENST00000429990, ENST00000613038, ENST00000692376

RefSeq mRNA: 3 — MANE Select: NM_001306094 NM_001306094, NM_001385737, NM_001385738

CCDS: CCDS76897

Canonical transcript exons

ENST00000692376 — 8 exons

Exon	Start	End
ENSE00002458049	74389825	74389885
ENSE00002459655	74389995	74390030
ENSE00003312517	74385554	74385749
ENSE00003358217	74385342	74385441
ENSE00003442494	74381516	74381698
ENSE00003926707	74391391	74392115
ENSE00003931586	74376306	74377346
ENSE00003933240	74377952	74378039

Expression profiles

Bgee: expression breadth ubiquitous, 140 present calls, max score 94.58.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
right testis	UBERON:0004534	94.58	gold quality
left testis	UBERON:0004533	94.23	gold quality
testis	UBERON:0000473	93.23	gold quality
lower esophagus mucosa	UBERON:0035834	92.12	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	89.96	gold quality
mucosa of stomach	UBERON:0001199	88.81	gold quality
right lobe of liver	UBERON:0001114	88.40	gold quality
metanephros cortex	UBERON:0010533	87.46	gold quality
olfactory segment of nasal mucosa	UBERON:0005386	86.86	gold quality
right uterine tube	UBERON:0001302	86.41	gold quality
adenohypophysis	UBERON:0002196	85.56	gold quality
cortex of kidney	UBERON:0001225	85.40	gold quality
transverse colon	UBERON:0001157	83.09	gold quality
small intestine Peyer’s patch	UBERON:0003454	83.05	gold quality
cerebellar cortex	UBERON:0002129	82.94	gold quality
cerebellar hemisphere	UBERON:0002245	82.89	gold quality
pituitary gland	UBERON:0000007	82.78	gold quality
prostate gland	UBERON:0002367	82.75	gold quality
right hemisphere of cerebellum	UBERON:0014890	82.45	gold quality
cerebellum	UBERON:0002037	82.38	gold quality
granulocyte	CL:0000094	82.18	gold quality
rectum	UBERON:0001052	81.43	gold quality
body of pancreas	UBERON:0001150	81.29	gold quality
body of stomach	UBERON:0001161	81.24	gold quality
minor salivary gland	UBERON:0001830	81.09	gold quality
fundus of stomach	UBERON:0001160	81.02	gold quality
descending thoracic aorta	UBERON:0002345	80.82	gold quality
right lobe of thyroid gland	UBERON:0001119	80.75	gold quality
primary visual cortex	UBERON:0002436	80.65	gold quality
left lobe of thyroid gland	UBERON:0001120	80.58	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	4.88

Regulation

Is transcription factor: no

Cross-species orthologs

0 orthologs

Paralogs (19): NPIPB12 (ENSG00000169203), NPIPB3 (ENSG00000169246), NPIPA1 (ENSG00000183426), NPIPA5 (ENSG00000183793), NPIPA6 (ENSG00000183889), NPIPB4 (ENSG00000185864), NPIPB9 (ENSG00000196993), NPIPB13 (ENSG00000198064), NPIPB6 (ENSG00000198156), NPIPA8 (ENSG00000214940), NPIPA7 (ENSG00000214967), NPIPA3 (ENSG00000224712), NPIPA9 (ENSG00000233024), NPIPB7 (ENSG00000233232), NPIPB2 (ENSG00000234719), NPIPB5 (ENSG00000243716), NPIPB11 (ENSG00000254206), NPIPA2 (ENSG00000254852), NPIPB8 (ENSG00000255524)

Protein

Protein identifiers

Nuclear pore complex-interacting protein family member B15 — A6NHN6 (reviewed: A6NHN6)

Alternative names: Nuclear pore complex-interacting protein-like 2

All UniProt accessions (1): A6NHN6

UniProt curated annotations — full annotation on UniProt →

Subcellular location. Secreted.

Similarity. Belongs to the NPIP family.

RefSeq proteins (5): NP_001293023, NP_001372666, NP_001372667, NP_001408663, NP_001408670 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR009443	NPIP	Family
IPR054697	NPIP_N	Domain

Pfam: PF06409

UniProt features (8 total): compositionally biased region 3, region of interest 2, signal peptide 1, chain 1, glycosylation site 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-A6NHN6-F1	50.26	0.03

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Glycosylation sites (1): 111

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 24 (showing top): WALLACE_PROSTATE_CANCER_RACE_UP, ONKEN_UVEAL_MELANOMA_UP, PARENT_MTOR_SIGNALING_UP, THUM_SYSTOLIC_HEART_FAILURE_DN, SENGUPTA_EBNA1_ANTICORRELATED, chr16q23, GSE1460_CD4_THYMOCYTE_VS_NAIVE_CD4_TCELL_CORD_BLOOD_DN, JINESH_BLEBBISHIELD_VS_LIVE_CONTROL_UP, JINESH_BLEBBISHIELD_TRANSFORMED_STEM_CELL_SPHERES_DN, MANNE_COVID19_COMBINED_COHORT_VS_HEALTHY_DONOR_PLATELETS_UP, DESCARTES_MAIN_FETAL_PAEP_MECOM_POSITIVE_CELLS, THAKAR_PBMC_INACTIVATED_INFLUENZA_AGE_21_30YO_RESPONDERS_28DY_DN, THAKAR_PBMC_INACTIVATED_INFLUENZA_AGE_21_30YO_RESPONDERS_7DY_DN, THAKAR_PBMC_INACTIVATED_INFLUENZA_AGE_21_30YO_VS_70PLS_0DY_UP, GSE360_DC_VS_MAC_L_DONOVANI_UP

GO Biological Process (0):

GO Molecular Function (0):

GO Cellular Component (1): extracellular region (GO:0005576)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
cellular anatomical structure	1

Protein interactions and networks

STRING

627 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
NPIPB15	C8orf58	Q8NAV2	480
NPIPB15	NICOL1	Q5BLP8	418
NPIPB15	ZNF787	Q6DD87	395
NPIPB15	RNF157	Q96PX1	380
NPIPB15	WASHC2A	Q641Q2	377
NPIPB15	KIAA0040	Q15053	370
NPIPB15	BEX5	Q5H9J7	350
NPIPB15	DNASE1L2	Q92874	342
NPIPB15	F8A2	P23610	327
NPIPB15	SAMD5	Q5TGI4	324
NPIPB15	NBPF1	Q3BBV0	324
NPIPB15	BOLA2	Q9H3K6	322
NPIPB15	SPMAP2L	P0DJG4	313
NPIPB15	ZCCHC3	Q9NUD5	311
NPIPB15	PNLIPRP1	P54315	305

IntAct

2 interactions, top by confidence:

A	B	Type	Score
hemL2	NPIPB15	psi-mi:“MI:0915”(physical association)	0.000

ESM2 similar proteins: A0A0B4J1W7, A0A7H0DN35, A4QN01, A6NHN6, A6NJ64, A8MQ11, E9PIF3, E9PJ23, E9PJI5, E9PKD4, E9PQR5, F5HGC2, F8W1W9, F8WFD2, O75200, O83374, P05913, P06486, P07396, P0C7Q2, P0CK47, P0CK48, P0DM63, P0DXC3, P15489, P16765, P16802, P20969, P36443, P38900, P47003, P68341, P68454, P68455, P87191, P92537, P92561, Q03418, Q32M92, Q4ZGE2

Diamond homologs: A0A0B4J1W7, A6NHN6, A6NJ64, A6NJU9, A8MRT5, C9JG80, E5RHQ5, E9PIF3, E9PJ23, E9PJI5, E9PKD4, E9PQR5, F8W0I5, F8W1W9, F8WFD2, O75200, P0DM63, P0DXC3, Q92617, Q9UND3, O70490, Q08AH1, Q08AH3, Q3UNX5, Q53FZ2, Q5REV5, Q68CK6, Q6AYT9, Q6NUN0, Q6SKG1, Q8BGA8, Q8K0L3, Q91VA0, Q9BEA2

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

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

Top pathogenic / likely-pathogenic (0)

SpliceAI

727 predictions. Top by Δscore:

Variant	Effect	Δscore
16:74378040:G:GG	donor_gain	1.0000
16:74381694:TTTGT:T	donor_gain	1.0000
16:74381695:TTGT:T	donor_gain	1.0000
16:74381696:TGTG:T	donor_loss	1.0000
16:74381697:GT:G	donor_gain	1.0000
16:74381698:TGTG:T	donor_loss	1.0000
16:74381699:G:C	donor_loss	1.0000
16:74381699:G:GG	donor_gain	1.0000
16:74381701:GAGT:G	donor_loss	1.0000
16:74381702:AG:A	donor_loss	1.0000
16:74385338:CTA:C	acceptor_loss	1.0000
16:74385339:TA:T	acceptor_loss	1.0000
16:74385341:G:GC	acceptor_loss	1.0000
16:74385341:GGT:G	acceptor_gain	1.0000
16:74385437:GAAAG:G	donor_gain	1.0000
16:74385440:AGGT:A	donor_loss	1.0000
16:74385441:GGTA:G	donor_loss	1.0000
16:74385442:G:GA	donor_loss	1.0000
16:74385443:T:G	donor_loss	1.0000
16:74385750:G:GG	donor_gain	1.0000
16:74378035:CCCCT:C	donor_gain	0.9900
16:74378036:CCCT:C	donor_gain	0.9900
16:74378037:CCT:C	donor_gain	0.9900
16:74378038:CT:C	donor_gain	0.9900
16:74381506:A:AG	acceptor_gain	0.9900
16:74381511:TCCA:T	acceptor_loss	0.9900
16:74381512:CCAG:C	acceptor_loss	0.9900
16:74381514:A:AG	acceptor_gain	0.9900
16:74381514:A:C	acceptor_loss	0.9900
16:74381515:G:GA	acceptor_loss	0.9900

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000204369 (16:74390575 C>G), RS1000452530 (16:74374548 A>G), RS1001177237 (16:74383769 A>T), RS1002146100 (16:74378423 CTTTTTTTTTTT>C,CT,CTT,CTTT,CTTTT,CTTTTT,CTTTTTT,CTTTTTTT,CTTTTTTTT,CTTTTTTTTT,CTTTTTTTTTT,CTTTTTTTTTTTT,CTTTTTTTTTTTTT,CTTTTTTTTTTTTTT,CTTTTTTTTTTTTTTT,CTTTTTTTTTTTTTTTT,CTTTTTTTTTTTTTTTTT,CTTTTTTTTTTTTTTTTTT,CTTTTTTTTTTTTTTTTTTT,CTTTTTTTTTTTTTTTTTTTT,CTTTTTTTTTTTTTTTTTTTTT), RS1002214171 (16:74383008 C>A), RS1002812313 (16:74387513 T>C), RS1003942288 (16:74387947 C>G), RS1004100964 (16:74381035 C>G,T), RS1006446231 (16:74385422 C>G), RS1007595534 (16:74386324 C>A,T), RS1008373641 (16:74375887 G>A), RS1008448777 (16:74376763 A>G,T), RS1008616458 (16:74388591 A>G), RS1009083740 (16:74389383 G>GT,GTT), RS1009167420 (16:74382933 C>A,G,T)

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

0 associations (top):

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

16 total (human), top 16 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
GSK-J4	increases expression	1
bisphenol F	affects cotreatment, decreases expression	1
triphenyl phosphate	affects expression	1
sodium arsenite	affects expression	1
manganese chloride	decreases expression, increases abundance	1
bisphenol S	affects cotreatment, decreases expression	1
Dexamethasone	affects cotreatment, decreases expression	1
Estradiol	affects expression	1
Formaldehyde	increases expression	1
Indomethacin	affects cotreatment, decreases expression	1
Manganese	decreases expression, increases abundance	1
Methyl Methanesulfonate	increases expression	1
Zinc	increases expression	1
1-Methyl-3-isobutylxanthine	affects cotreatment, decreases expression	1
Acrylamide	increases expression	1
S-Nitrosoglutathione	decreases expression	1

Clinical trials (associated diseases)

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