GOLGA6L10

Summary

GOLGA6L10 (golgin A6 family like 10, HGNC:37228) is a protein-coding gene on chromosome 15q25.2, encoding Golgin subfamily A member 6-like protein 10 (A6NI86).

At a glance

• GWAS associations: 1
• Clinical variants (ClinVar): 90 total
• MANE Select transcript: NM_001164465

Identifiers

Gene identifiers

Field	Value
HGNC ID	HGNC:37228
Approved symbol	GOLGA6L10
Name	golgin A6 family like 10
Location	15q25.2
Locus type	gene with protein product
Status	Approved
Ensembl gene	ENSG00000278662
Ensembl biotype	protein_coding
Entrez	647042

Gene structure

Transcript identifiers

Ensembl transcripts: 3 — 2 protein_coding, 1 retained_intron

ENST00000558035, ENST00000610657, ENST00000621197

RefSeq mRNA: 1 — MANE Select: NM_001164465 NM_001164465

CCDS: CCDS45325

Canonical transcript exons

ENST00000610657 — 9 exons

Exon	Start	End
ENSE00002255247	82349292	82349475
ENSE00002468223	82339993	82342908
ENSE00003716763	82345809	82345896
ENSE00003726768	82344261	82344321
ENSE00003733128	82343118	82343220
ENSE00003737818	82347510	82347629
ENSE00003747884	82346827	82346886
ENSE00003752769	82346561	82346641
ENSE00003753750	82344588	82345426

Expression profiles

Bgee: expression breadth ubiquitous, 131 present calls, max score 80.65.

Top tissues by expression

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

Tissue	Anatomy ID	Expression score	Quality
cortical plate	UBERON:0005343	80.65	gold quality
left testis	UBERON:0004533	80.20	gold quality
right testis	UBERON:0004534	80.03	gold quality
male germ line stem cell (sensu Vertebrata) in testis	CL:0000089 ∩ UBERON:0000473	79.69	gold quality
right uterine tube	UBERON:0001302	79.59	gold quality
testis	UBERON:0000473	79.44	gold quality
primordial germ cell in gonad	CL:0000670 ∩ UBERON:0000991	78.23	gold quality
left ovary	UBERON:0002119	77.25	gold quality
ganglionic eminence	UBERON:0004023	77.15	gold quality
esophagus mucosa	UBERON:0002469	76.11	gold quality
vagina	UBERON:0000996	75.76	gold quality
ovary	UBERON:0000992	75.73	gold quality
ectocervix	UBERON:0012249	75.68	gold quality
right ovary	UBERON:0002118	74.73	gold quality
uterine cervix	UBERON:0000002	74.27	gold quality
lower esophagus mucosa	UBERON:0035834	74.24	gold quality
endocervix	UBERON:0000458	73.95	gold quality
body of uterus	UBERON:0009853	73.67	gold quality
esophagus	UBERON:0001043	73.39	gold quality
endometrium	UBERON:0001295	73.32	gold quality
mucosa of stomach	UBERON:0001199	73.28	gold quality
minor salivary gland	UBERON:0001830	73.28	gold quality
ventricular zone	UBERON:0003053	72.59	gold quality
stromal cell of endometrium	CL:0002255	72.50	gold quality
left uterine tube	UBERON:0001303	72.45	gold quality
myometrium	UBERON:0001296	72.17	gold quality
saliva-secreting gland	UBERON:0001044	72.16	gold quality
muscle layer of sigmoid colon	UBERON:0035805	71.86	gold quality
body of pancreas	UBERON:0001150	70.61	gold quality
esophagogastric junction muscularis propria	UBERON:0035841	70.61	gold quality

Single-cell (SCXA)

Detected in 1 experiment(s), a significant marker in 0.

Experiment	Marker?	Max mean expression
E-ANND-3	no	1.02

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

110 targeting GOLGA6L10, 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-3646	100.00	73.56	5283
HSA-MIR-4262	100.00	73.26	3931
HSA-MIR-6873-3P	100.00	71.42	2626
HSA-MIR-30A-5P	100.00	76.31	3233
HSA-MIR-30B-5P	100.00	76.29	3248
HSA-MIR-30C-5P	100.00	76.29	3248
HSA-MIR-30D-5P	100.00	76.32	3233
HSA-MIR-30E-5P	100.00	76.32	3242
HSA-MIR-4795-3P	100.00	74.62	4024
HSA-MIR-181A-5P	99.99	72.96	2995
HSA-MIR-181B-5P	99.99	72.97	2996
HSA-MIR-181C-5P	99.99	72.95	2996
HSA-MIR-181D-5P	99.99	73.04	2997
HSA-MIR-3662	99.99	73.82	5684
HSA-MIR-548C-3P	99.99	74.01	7587
HSA-MIR-520D-5P	99.98	73.34	4883
HSA-MIR-524-5P	99.98	73.43	4882
HSA-MIR-8068	99.98	73.85	2376
HSA-MIR-4803	99.98	71.99	3117
HSA-MIR-607	99.97	73.62	5593
HSA-MIR-23A-3P	99.95	74.24	3163
HSA-MIR-23B-3P	99.95	74.24	3163
HSA-MIR-23C	99.95	73.92	3192
HSA-MIR-128-3P	99.95	71.17	2484
HSA-MIR-216A-3P	99.95	71.19	2505
HSA-MIR-651-3P	99.94	73.48	5177
HSA-MIR-144-3P	99.94	73.98	2698
HSA-MIR-3143	99.93	71.96	3104
HSA-MIR-335-3P	99.93	73.36	4958
HSA-MIR-374A-5P	99.90	71.34	2923

Cross-species orthologs

0 orthologs

Paralogs (10): GOLGA6L2 (ENSG00000174450), GOLGA6L4 (ENSG00000184206), GOLGA6L9 (ENSG00000197978), GOLGA6L25 (ENSG00000227717), GOLGA6L24 (ENSG00000237850), GOLGA6L7 (ENSG00000261649), GOLGA6L26 (ENSG00000273756), GOLGA6L1 (ENSG00000273976), GOLGA6L6 (ENSG00000277322), GOLGA6L22 (ENSG00000277865)

Protein

Protein identifiers

Golgin subfamily A member 6-like protein 10 — A6NI86 (reviewed: A6NI86)

All UniProt accessions (2): A6NI86, A0A087X1J3

UniProt curated annotations — full annotation on UniProt →

Similarity. Belongs to the GOLGA6 family.

RefSeq proteins (1): NP_001157937* (*=MANE)

Domains & families (InterPro)

ID	Name	Type
IPR026737	GOLGA6L	Family
IPR043976	GOLGA_cons_dom	Domain

Pfam: PF15070

UniProt features (9 total): compositionally biased region 5, region of interest 2, chain 1, coiled-coil region 1

Structure

Experimental structures (PDB)

0 structures.

Predicted structure (AlphaFold)

Model	pLDDT	Fraction very-high
AF-A6NI86-F1	75.57	0.48

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 16 (showing top): MIR607, MIR3646, MIR520D_5P, MIR524_5P, MIR4719, MIR494_3P, MIR543, MIR302A_5P, MIR5701, MIR548AO_5P_MIR548AX, MIR3192_5P, MIR4424, MIR5693, MIR6822_3P, MIR296_3P

GO Biological Process (0):

GO Molecular Function (0):

GO Cellular Component (0):

Protein interactions and networks

STRING

608 interactions, top by confidence (×1000):

Protein A	Protein B	Partner UniProt	Score
GOLGA6L10	SPDYE5	A6NIY4	507
GOLGA6L10	ZBED11	P0CF97	477
GOLGA6L10	OR5P2	Q8WZ92	436
GOLGA6L10	FAM228B	P0C875	432
GOLGA6L10	CLEC19A	Q6UXS0	420
GOLGA6L10	FOXD4L3	Q6VB84	417
GOLGA6L10	ANKRD45	Q5TZF3	402
GOLGA6L10	C1orf198	Q9H425	396
GOLGA6L10	H3BVE0	H3BVE0	321
GOLGA6L10	BRINP2	Q9C0B6	311
GOLGA6L10	NBPF1	Q3BBV0	307
GOLGA6L10	SYNDIG1	Q9H7V2	306
GOLGA6L10	UBXN11	Q5T124	299
GOLGA6L10	PKD1L3	Q7Z443	292
GOLGA6L10	SPACA7	Q96KW9	289

IntAct

3 interactions, top by confidence:

A	B	Type	Score
	GOLGA6L10	psi-mi:“MI:0915”(physical association)	0.370
GOLGA6L10		psi-mi:“MI:0915”(physical association)	0.370

ESM2 similar proteins: A0A0J9YWL9, A0A0J9YY54, A5D7L8, A6NEF3, A6NI86, B2KFW1, B4DH59, D3YZV8, E9Q6E9, F1LWT0, F6QRE9, H0YKK7, O15069, P17040, P17564, P21263, P51843, P62521, P79386, Q0P6D6, Q13342, Q2EG98, Q2KI51, Q3BBV2, Q4VC44, Q5F378, Q5QGU6, Q63560, Q6ITT4, Q6P5H2, Q6ZQX7, Q86T75, Q8CHD8, Q8IWY8, Q8N660, Q8N693, Q99PG2, Q9BE18, Q9BG93, Q9BG94

Diamond homologs: A0A1B0GV03, A1IH00, A6NC78, A6NCC3, A6NDK9, A6NDN3, A6NEF3, A6NEM1, A6NI86, A6NN73, A7E2F4, A8MQT2, A8MZA4, F8WBI6, H0YKK7, H0YM25, H3BPF8, H3BSY2, H3BV12, I6L899, P0CG33, P0CJ92, P0DX00, P0DX01, P0DX02, P0DX52, P0DX53, Q08379, Q62839, Q8N7Z2, Q8N9W4, Q921M4, Q9NYA3, A6NMD2, D6RF30, H3BQL2, Q0D2H9, Q9HBQ8

SIGNOR signaling

0 interactions.

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

Classification	Count (floor)
Pathogenic	0
Likely pathogenic	0
Uncertain significance	72
Likely benign	14
Benign	2

Top pathogenic / likely-pathogenic (0)

SpliceAI

1298 predictions. Top by Δscore:

Variant	Effect	Δscore
15:82343114:TCA:T	donor_loss	1.0000
15:82343115:CAC:C	donor_loss	1.0000
15:82343116:ACCAC:A	donor_gain	1.0000
15:82343117:CCA:C	donor_gain	1.0000
15:82343117:CCACC:C	donor_gain	1.0000
15:82344318:TGTT:T	acceptor_gain	1.0000
15:82344321:TC:T	acceptor_loss	1.0000
15:82344322:C:CC	acceptor_gain	1.0000
15:82344322:CT:C	acceptor_loss	1.0000
15:82344584:GTACC:G	donor_loss	1.0000
15:82344585:TACC:T	donor_loss	1.0000
15:82344586:A:AC	donor_gain	1.0000
15:82344586:A:T	donor_loss	1.0000
15:82344587:C:CG	donor_gain	1.0000
15:82344587:CCAG:C	donor_gain	1.0000
15:82345807:AC:A	donor_gain	1.0000
15:82345808:CC:C	donor_gain	1.0000
15:82345808:CCCGT:C	donor_gain	1.0000
15:82345896:CCTG:C	acceptor_loss	1.0000
15:82345897:CTGC:C	acceptor_loss	1.0000
15:82345902:C:T	acceptor_gain	1.0000
15:82346651:A:C	acceptor_gain	1.0000
15:82346678:T:TC	acceptor_gain	1.0000
15:82346886:AC:A	acceptor_loss	1.0000
15:82346887:C:CC	acceptor_gain	1.0000
15:82347505:CTCA:C	donor_loss	1.0000
15:82347506:TCACA:T	donor_loss	1.0000
15:82347507:CA:C	donor_loss	1.0000
15:82347507:CAC:C	donor_loss	1.0000
15:82347508:A:AC	donor_gain	1.0000

AlphaMissense

3394 scored. Top likely-pathogenic:

Variant	Protein change	am_pathogenicity
15:82342783:A:G	I521T	0.957
15:82344639:C:A	W407C	0.942
15:82344639:C:G	W407C	0.942
15:82342783:A:C	I521S	0.929
15:82342783:A:T	I521N	0.919
15:82349372:A:G	W2R	0.915
15:82349372:A:T	W2R	0.915
15:82344641:A:G	W407R	0.910
15:82344641:A:T	W407R	0.910
15:82344844:A:G	L339P	0.905
15:82342789:A:G	I519T	0.884
15:82344597:G:C	F421L	0.865
15:82344597:G:T	F421L	0.865
15:82344599:A:G	F421L	0.865
15:82345354:A:G	L169P	0.848
15:82349298:C:A	K26N	0.847
15:82349298:C:G	K26N	0.847
15:82347628:A:G	L29S	0.841
15:82344766:A:G	L365P	0.835
15:82342789:A:C	I519S	0.830
15:82344652:A:G	L403P	0.825
15:82344664:A:G	L399P	0.821
15:82345321:A:G	L180P	0.820
15:82349370:C:A	W2C	0.818
15:82349370:C:G	W2C	0.818
15:82344673:A:G	L396P	0.817
15:82344996:C:A	Q288H	0.814
15:82344996:C:G	Q288H	0.814
15:82345027:A:G	L278P	0.813
15:82345038:C:A	Q274H	0.811

dbSNP variants (sampled 300 via entrez): RS1004202609 (15:82350691 T>C), RS1008347756 (15:82345114 C>A), RS1008419857 (15:82340982 T>C), RS1015671255 (15:82345346 C>A,G), RS1015744833 (15:82342460 G>A,C), RS1023859179 (15:82339588 AG>A), RS1024306781 (15:82350611 G>C), RS1027659498 (15:82345824 G>C), RS1041085704 (15:82345800 C>G), RS1045554101 (15:82343918 C>G,T), RS1047165078 (15:82350487 G>A), RS1049662523 (15:82347003 C>A,T), RS1054259384 (15:82346795 G>A), RS1054817181 (15:82344855 C>T), RS111590690 (15:82347856 T>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

1 associations (top):

Study	Trait	p-value
GCST007277_21	Tourette syndrome	7.000000e-06

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

4 total (human), top 4 by PubMed support.

Chemical	Actions (top 5)	PubMed papers
tris(1,3-dichloro-2-propyl)phosphate	increases expression	1
sodium arsenite	decreases expression	1
Cadmium	decreases expression	1
Okadaic Acid	increases expression	1

Clinical trials (associated diseases)

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