UBL7

Summary

UBL7 (ubiquitin like 7, HGNC:28221) is a protein-coding gene on chromosome 15q24.1, encoding Ubiquitin-like protein 7 (Q96S82). Interferon-stimulated protein that positively regulates RNA virus-triggered innate immune signaling.

Enables protein-macromolecule adaptor activity. Involved in antiviral innate immune response. Is active in cytoplasm.

Source: NCBI Gene 84993 — RefSeq curated summary.

At a glance

• GWAS associations: 4
• Clinical variants (ClinVar): 63 total
• MANE Select transcript: NM_032907

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:28221
Approved symbol	UBL7
Name	ubiquitin like 7
Location	15q24.1
Locus type	gene with protein product
Status	Approved
Aliases	BMSC-UbP, MGC14421
Ensembl gene	ENSG00000138629
Ensembl biotype	protein_coding
OMIM	609748
Entrez	84993

Gene structure

Transcript identifiers

Ensembl transcripts: 45 — 45 protein_coding

ENST00000361351, ENST00000395081, ENST00000563081, ENST00000564488, ENST00000565130, ENST00000565335, ENST00000565494, ENST00000566365, ENST00000567435, ENST00000902154, ENST00000902155, ENST00000902156, ENST00000902157, ENST00000902158, ENST00000902159, ENST00000902160, ENST00000902161, ENST00000902162, ENST00000902163, ENST00000902164, ENST00000902165, ENST00000940643, ENST00000940644, ENST00000940645, ENST00000940646, ENST00000940647, ENST00000940648, ENST00000940649, ENST00000940650, ENST00000940651, ENST00000940652, ENST00000940653, ENST00000940654, ENST00000940655, ENST00000940656, ENST00000940657, ENST00000940658, ENST00000940659, ENST00000940660, ENST00000940661, ENST00000947580, ENST00000947581, ENST00000947582, ENST00000947583, ENST00000947584

RefSeq mRNA: 6 — MANE Select: NM_032907 NM_001286739, NM_001286740, NM_001286741, NM_001286742, NM_032907, NM_201265

CCDS: CCDS10263

Canonical transcript exons

ENST00000395081 — 11 exons

Exon	Start	End
ENSE00000931902	74448478	74448600
ENSE00000931903	74449186	74449353
ENSE00000931904	74449626	74449675
ENSE00000931905	74449936	74450069
ENSE00000931907	74451436	74451520
ENSE00000931908	74452296	74452378
ENSE00000931909	74456552	74456671
ENSE00001110742	74445977	74446227
ENSE00001259805	74458684	74458896
ENSE00001520566	74461037	74461160
ENSE00003606483	74450802	74450859

Expression profiles

Bgee: expression breadth ubiquitous, 134 present calls, max score 96.92.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 29.4379 / max 336.6392, expressed in 1817 samples.

FANTOM5 promoters (1 alternative TSS)

Promoter ID	TPM avg	Samples expressed
150915	29.4379	1817

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
primary visual cortex	UBERON:0002436	96.92	gold quality
prefrontal cortex	UBERON:0000451	96.70	gold quality
apex of heart	UBERON:0002098	96.62	gold quality
frontal cortex	UBERON:0001870	96.30	gold quality
hindlimb stylopod muscle	UBERON:0004252	96.02	gold quality
gastrocnemius	UBERON:0001388	95.95	gold quality
superior frontal gyrus	UBERON:0002661	95.91	gold quality
right frontal lobe	UBERON:0002810	95.87	gold quality
cerebral cortex	UBERON:0000956	95.63	gold quality
Brodmann (1909) area 9	UBERON:0013540	95.63	gold quality
dorsolateral prefrontal cortex	UBERON:0009834	95.56	gold quality
blood	UBERON:0000178	95.53	gold quality
anterior cingulate cortex	UBERON:0009835	95.47	gold quality
muscle of leg	UBERON:0001383	95.32	gold quality
C1 segment of cervical spinal cord	UBERON:0006469	94.81	gold quality
Ammon’s horn	UBERON:0001954	94.52	gold quality
heart left ventricle	UBERON:0002084	94.51	gold quality
putamen	UBERON:0001874	94.44	gold quality
amygdala	UBERON:0001876	94.34	gold quality
temporal lobe	UBERON:0001871	94.33	gold quality
substantia nigra	UBERON:0002038	94.32	gold quality
monocyte	CL:0000576	94.16	gold quality
leukocyte	CL:0000738	94.14	gold quality
right testis	UBERON:0004534	94.05	gold quality
granulocyte	CL:0000094	93.99	gold quality
left testis	UBERON:0004533	93.92	gold quality
muscle tissue	UBERON:0002385	93.89	gold quality
brain	UBERON:0000955	93.82	gold quality
skeletal muscle tissue	UBERON:0001134	93.72	gold quality
heart	UBERON:0000948	93.63	gold quality

Single-cell (SCXA)

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

Experiment	Marker?	Max mean expression
E-ANND-3	yes	7.40

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

18 targeting UBL7, 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-6778-3P	99.96	67.29	2693
HSA-MIR-4725-3P	99.96	69.53	2520
HSA-MIR-6780B-5P	99.96	69.60	2562
HSA-MIR-2110	99.96	66.68	1930
HSA-MIR-4731-5P	99.89	67.23	2537
HSA-MIR-4271	99.88	68.32	2244
HSA-MIR-4306	99.72	70.50	3630
HSA-MIR-3202	99.66	67.70	2737
HSA-MIR-3612	99.45	66.02	1333
HSA-MIR-650	99.45	65.77	1309
HSA-MIR-185-5P	99.35	68.60	2497
HSA-MIR-6731-5P	99.28	67.42	2375
HSA-MIR-8085	99.28	67.56	2362
HSA-MIR-6814-5P	99.03	66.68	1273
HSA-MIR-4772-3P	98.04	65.60	1203
HSA-MIR-450A-2-3P	97.91	67.56	1459
HSA-MIR-6836-3P	97.08	64.99	712
HSA-MIR-591	96.29	68.16	611

Literature-anchored findings (GeneRIF, showing 2)

• BMSC-UbP might play roles in regulation of BMSC function or cell differentiation through an evocator- and cell-specific pattern. (PMID:12644319)
• the solution NMR structure of the ubiquitin-associated domain of the human BMSC-UbP protein and its complex with ubiquitin (PMID:16731964)

Cross-species orthologs

5 orthologs

Organism	Symbol	Gene ID
danio_rerio	ubl7a	ENSDARG00000024229
danio_rerio	ubl7b	ENSDARG00000040286
mus_musculus	Ubl7	ENSMUSG00000055720
rattus_norvegicus	Ubl7	ENSRNOG00000007442
drosophila_melanogaster	CG31528	FBGN0051528

Paralogs (5): UBQLN1 (ENSG00000135018), UBQLN4 (ENSG00000160803), UBQLNL (ENSG00000175518), UBQLN3 (ENSG00000175520), UBQLN2 (ENSG00000188021)

Protein

Protein identifiers

Ubiquitin-like protein 7 — Q96S82 (reviewed: Q96S82)

Alternative names: Bone marrow stromal cell ubiquitin-like protein, Ubiquitin-like protein SB132

All UniProt accessions (5): Q96S82, H3BSE0, H3BSQ2, H3BUV9, H3BV23

UniProt curated annotations — full annotation on UniProt →

Function. Interferon-stimulated protein that positively regulates RNA virus-triggered innate immune signaling. Mechanistically, promotes ‘Lys-27’-linked polyubiquitination of MAVS through TRIM21 leading to enhanced the IFN signaling pathway.

Subunit / interactions. Binds ubiquitin. Interacts with MAVS; this interaction enhances TRIM21-dependent ‘Lys-27’-linked polyubiquitination of MAVS.

Tissue specificity. Ubiquitous. Highly expressed in heart, skeletal muscle, testis, thyroid and adrenal gland.

Post-translational modifications. Deubiquitinated by OTUD4 which stabilizes UBL7 expression.

Induction. By type I interferon. Down-regulated by phorbol myristate acetate (PMA) in bone marrow stroma cells.

RefSeq proteins (6): NP_001273668, NP_001273669, NP_001273670, NP_001273671, NP_116296, NP_957717 (=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR000626	Ubiquitin-like_dom	Domain
IPR009060	UBA-like_sf	Homologous_superfamily
IPR015496	Ubiquilin	Family
IPR015940	UBA	Domain
IPR029071	Ubiquitin-like_domsf	Homologous_superfamily
IPR047877	UBL7_Ubl	Domain
IPR047878	UBL7_UBA	Domain

Pfam: PF00240

UniProt features (15 total): compositionally biased region 4, helix 3, domain 2, sequence conflict 2, chain 1, turn 1, region of interest 1, modified residue 1

Structure

Experimental structures (PDB)

2 structures.

PDB	Method	Resolution (Å)
2CWB	SOLUTION NMR
2DEN	SOLUTION NMR

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-Q96S82-F1	67.70	0.00

Functional residue map

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

Post-translational modifications (1): 230

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 77 (showing top): GOBP_MACROMOLECULE_CATABOLIC_PROCESS, GOBP_DEFENSE_RESPONSE_TO_OTHER_ORGANISM, GOBP_DEFENSE_RESPONSE_TO_VIRUS, GRYDER_PAX3FOXO1_ENHANCERS_IN_TADS, GOBP_PROTEIN_CATABOLIC_PROCESS, GOBP_RESPONSE_TO_VIRUS, GRYDER_PAX3FOXO1_TOP_ENHANCERS, GOBP_PROTEOLYSIS, GSE13887_HEALTHY_VS_LUPUS_RESTING_CD4_TCELL_UP, GRYDER_PAX3FOXO1_ENHANCERS_KO_DOWN, DUAN_PRDM5_TARGETS, GOMF_POLYUBIQUITIN_MODIFICATION_DEPENDENT_PROTEIN_BINDING, GOMF_MODIFICATION_DEPENDENT_PROTEIN_BINDING, E2F2_TARGET_GENES, FOXJ2_TARGET_GENES

GO Biological Process (6): ubiquitin-dependent protein catabolic process (GO:0006511), antiviral innate immune response (GO:0140374), immune system process (GO:0002376), protein K27-linked ubiquitination (GO:0044314), innate immune response (GO:0045087), defense response to virus (GO:0051607)

GO Molecular Function (3): protein-macromolecule adaptor activity (GO:0030674), polyubiquitin modification-dependent protein binding (GO:0031593), protein binding (GO:0005515)

GO Cellular Component (2): cytoplasm (GO:0005737), cytosol (GO:0005829)

GO top-level categories

Rollup of top GO terms by namespace:

Category	Terms
cellular anatomical structure	2
protein ubiquitination	1
modification-dependent protein catabolic process	1
innate immune response	1
defense response to virus	1
biological_process	1
protein polyubiquitination	1
immune response	1
defense response to symbiont	1
defense response	1
response to virus	1
protein binding	1
molecular adaptor activity	1
modification-dependent protein binding	1
binding	1
intracellular anatomical structure	1
cytoplasm	1

Protein interactions and networks

STRING

3510 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
UBL7	UBQLN2	Q9UHD9	836
UBL7	UBQLN1	Q9UMX0	828
UBL7	ZNF428	Q96B54	709
UBL7	CIAPIN1	Q6FI81	629
UBL7	CCDC33	Q8N5R6	629
UBL7	MAS1	P04201	624
UBL7	SLC44A3	Q8N4M1	534
UBL7	CLK3	P49761	496
UBL7	DDX49	Q9Y6V7	493
UBL7	PRMT2IP	Q6ZRI6	479
UBL7	UBAC1	Q9BSL1	478
UBL7	UBL4A	P11441	477
UBL7	NUB1	Q9Y5A7	469
UBL7	RWDD1	Q9H446	462
UBL7	ISLR2	Q6UXK2	452

IntAct

54 interactions, top by confidence:

A	B	Type	Score
VBP1	UBL7	psi-mi:“MI:0915”(physical association)	0.830
UBL7	VBP1	psi-mi:“MI:0915”(physical association)	0.830
UBL7	AP1G1	psi-mi:“MI:0915”(physical association)	0.720
AP1G1	UBL7	psi-mi:“MI:0915”(physical association)	0.720
UBL7	ERCC1	psi-mi:“MI:0915”(physical association)	0.670
ERCC1	UBL7	psi-mi:“MI:0915”(physical association)	0.670
VBP1	PFDN6	psi-mi:“MI:0914”(association)	0.640
UBL7	CAPN7	psi-mi:“MI:0915”(physical association)	0.560
CAPN7	UBL7	psi-mi:“MI:0915”(physical association)	0.560
UBL7		psi-mi:“MI:0915”(physical association)	0.560
	UBL7	psi-mi:“MI:0915”(physical association)	0.560
ERCC1	UBL7	psi-mi:“MI:0915”(physical association)	0.560
RXRB	UBL7	psi-mi:“MI:0915”(physical association)	0.560
ESRRG	UBL7	psi-mi:“MI:0915”(physical association)	0.560
KDELR1	TRAFD1	psi-mi:“MI:0914”(association)	0.530
UBL7		psi-mi:“MI:0915”(physical association)	0.520
	UBL7	psi-mi:“MI:0915”(physical association)	0.520

BioGRID (100): UBL7 (Two-hybrid), UBL7 (Two-hybrid), UBL7 (Two-hybrid), UBL7 (Two-hybrid), UBB (Affinity Capture-MS), UBE4B (Affinity Capture-MS), AMY1C (Affinity Capture-MS), HDAC6 (Affinity Capture-MS), UBL7 (Two-hybrid), UBL7 (Two-hybrid), UBL7 (Affinity Capture-MS), DDX3X (Co-fractionation), HSPA4L (Co-fractionation), SNF8 (Co-fractionation), TLN2 (Co-fractionation)

ESM2 similar proteins: A1CDT9, A1DCU5, A3KMV2, F4JPR7, G5EFF7, O17453, O48726, O74803, P32628, P48510, P54725, P54726, P54727, P54728, P55035, Q0CJ13, Q0U3Y6, Q10169, Q1DNB9, Q1EBV4, Q28DG7, Q29RK4, Q2H085, Q2KIS3, Q2USD7, Q40742, Q4KMA2, Q4WGS4, Q54LV1, Q5AY89, Q5XIR9, Q5ZJI9, Q6NXA9, Q6NYI0, Q7K2G1, Q7S906, Q7ZXQ3, Q84L30, Q84L31, Q84L32

Diamond homologs: Q2KIS3, Q91W67, Q96S82, Q9UHD9

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	43
Likely benign	2
Benign	2

Top pathogenic / likely-pathogenic (0)

SpliceAI

1566 predictions. Top by Δscore:

Variant	Effect	Δscore
15:74449180:TCATA:T	donor_loss	1.0000
15:74449181:CATAC:C	donor_loss	1.0000
15:74449182:ATAC:A	donor_loss	1.0000
15:74449183:TAC:T	donor_loss	1.0000
15:74449185:C:CG	donor_loss	1.0000
15:74449349:GTGTT:G	acceptor_gain	1.0000
15:74449350:TGTT:T	acceptor_gain	1.0000
15:74449351:GTT:G	acceptor_gain	1.0000
15:74449352:TT:T	acceptor_gain	1.0000
15:74449353:TCTGG:T	acceptor_loss	1.0000
15:74449354:C:CC	acceptor_gain	1.0000
15:74449624:A:AC	donor_gain	1.0000
15:74449625:C:CC	donor_gain	1.0000
15:74449931:CTCA:C	donor_loss	1.0000
15:74449933:CA:C	donor_loss	1.0000
15:74450065:CCAAC:C	acceptor_gain	1.0000
15:74450066:CAAC:C	acceptor_gain	1.0000
15:74450066:CAACC:C	acceptor_gain	1.0000
15:74450070:CTA:C	acceptor_loss	1.0000
15:74450071:T:C	acceptor_loss	1.0000
15:74451431:CTTA:C	donor_loss	1.0000
15:74451432:TTACC:T	donor_loss	1.0000
15:74451433:TACCA:T	donor_loss	1.0000
15:74451434:A:AC	donor_gain	1.0000
15:74451434:A:AT	donor_loss	1.0000
15:74451435:C:CA	donor_loss	1.0000
15:74451435:C:CC	donor_gain	1.0000
15:74451521:C:CC	acceptor_gain	1.0000
15:74456550:AC:A	donor_gain	1.0000
15:74456551:CC:C	donor_gain	1.0000

AlphaMissense

0 scored. Top likely-pathogenic:

dbSNP variants (sampled 300 via entrez): RS1000045651 (15:74452328 C>A,G,T), RS1000086766 (15:74445768 T>TG), RS1000168958 (15:74456971 A>G), RS1000401120 (15:74461624 T>C), RS1000410621 (15:74461460 C>G,T), RS1000636486 (15:74451143 C>T), RS1000841447 (15:74456182 C>T), RS1001134963 (15:74450101 G>A), RS1001225368 (15:74462776 C>A,T), RS1001334173 (15:74462034 A>G), RS1001618441 (15:74462418 C>A), RS1002180103 (15:74462096 A>C,G), RS1002294676 (15:74462346 C>G), RS1002372471 (15:74449069 C>T), RS1002476826 (15:74456043 T>C,G)

Disease associations

OMIM: gene MIM:609748 | disease phenotypes:

GenCC curated gene-disease

Mondo (0):

Orphanet (0):

HPO phenotypes

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

GWAS associations

4 associations (top):

Study	Trait	p-value
GCST004412_7	Craniofacial microsomia	1.000000e-23
GCST004865_16	Itch intensity from mosquito bite adjusted by bite size	6.000000e-08
GCST009391_1925	Metabolite levels	7.000000e-06
GCST90002382_325	Eosinophil percentage of white cells	3.000000e-09

EFO canonical traits (4, from GWAS)

EFO ID	Trait name
EFO:0008377	mosquito bite reaction itch intensity measurement
EFO:0008378	mosquito bite reaction size measurement
EFO:0010464	beta-aminoisobutyric acid measurement
EFO:0007991	eosinophil percentage of leukocytes

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

26 total (human), top 26 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
FR900359	increases phosphorylation	1
bisphenol F	increases expression, affects cotreatment	1
triphenyl phosphate	affects expression	1
pirinixic acid	increases activity, affects binding, decreases expression	1
sodium arsenite	decreases expression	1
coumarin	increases phosphorylation	1
beta-methylcholine	affects expression	1
CGP 52608	affects binding, increases reaction	1
K 7174	decreases expression	1
2-methyl-2H-pyrazole-3-carboxylic acid (2-methyl-4-o-tolylazophenyl)amide	decreases expression, decreases reaction	1
jinfukang	increases expression, affects cotreatment	1
Sunitinib	decreases expression	1
Vehicle Emissions	decreases expression, decreases reaction	1
Cisplatin	affects cotreatment, increases expression	1
Dexamethasone	increases expression, affects cotreatment	1
Estradiol	increases expression	1
Hydrogen Peroxide	affects expression	1
Indomethacin	affects cotreatment, increases expression	1
Lead	affects methylation	1
Thiram	decreases expression	1
Tretinoin	decreases expression	1
1-Methyl-3-isobutylxanthine	affects cotreatment, increases expression	1
Cyclosporine	decreases expression	1
Aflatoxin B1	decreases methylation	1
Lactic Acid	decreases expression	1
Particulate Matter	decreases expression, decreases reaction	1

Clinical trials (associated diseases)

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