RETREG2

gene
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Also known as MGC3035MAG-2

Summary

RETREG2 (reticulophagy regulator family member 2, HGNC:28450) is a protein-coding gene on chromosome 2q35, encoding Reticulophagy regulator 2 (Q8NC44). Endoplasmic reticulum (ER)-anchored autophagy regulator which exists in an inactive state under basal conditions but is activated following cellular stress.

Predicted to enable endoplasmic reticulum-autophagosome adaptor activity. Predicted to be involved in autophagy. Predicted to act upstream of or within collagen catabolic process; endoplasmic reticulum organization; and reticulophagy. Predicted to be located in endoplasmic reticulum membrane. Predicted to be active in membrane.

Source: NCBI Gene 79137 — RefSeq curated summary.

At a glance

  • GWAS associations: 4
  • Clinical variants (ClinVar): 94 total — 1 pathogenic
  • MANE Select transcript: NM_024293

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:28450
Approved symbolRETREG2
Namereticulophagy regulator family member 2
Location2q35
Locus typegene with protein product
StatusApproved
AliasesMGC3035, MAG-2
Ensembl geneENSG00000144567
Ensembl biotypeprotein_coding
Entrez79137

Gene structure

Transcript identifiers

Ensembl transcripts: 11 — 7 protein_coding, 2 nonsense_mediated_decay, 2 retained_intron

ENST00000273048, ENST00000420189, ENST00000430297, ENST00000430747, ENST00000443757, ENST00000452022, ENST00000452293, ENST00000458520, ENST00000465672, ENST00000481925, ENST00000934281

RefSeq mRNA: 3 — MANE Select: NM_024293 NM_001321109, NM_001321110, NM_024293

CCDS: CCDS2434

Canonical transcript exons

ENST00000430297 — 9 exons

ExonStartEnd
ENSE00001654336219182013219185475
ENSE00001791238219178275219178633
ENSE00003460368219180110219180245
ENSE00003475059219180670219180754
ENSE00003512374219179733219179763
ENSE00003528364219181369219181463
ENSE00003612593219178922219179028
ENSE00003618199219181062219181205
ENSE00003634182219181640219181775

Expression profiles

Bgee: expression breadth ubiquitous, 291 present calls, max score 98.92.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 37.5383 / max 356.9954, expressed in 1821 samples.

FANTOM5 promoters (3 alternative TSS)

Promoter IDTPM avgSamples expressed
2542621.52241814
2542515.90451803
254270.111440

Top tissues by expression

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

TissueAnatomy IDExpression scoreQuality
spermCL:000001998.92gold quality
left testisUBERON:000453398.82gold quality
right testisUBERON:000453498.75gold quality
endothelial cellCL:000011598.59gold quality
male germ cellCL:000001598.57gold quality
prefrontal cortexUBERON:000045198.55gold quality
cerebellar hemisphereUBERON:000224598.33gold quality
cerebellar cortexUBERON:000212998.29gold quality
right hemisphere of cerebellumUBERON:001489098.28gold quality
Brodmann (1909) area 23UBERON:001355498.23gold quality
cerebellumUBERON:000203798.15gold quality
primary visual cortexUBERON:000243698.15gold quality
middle temporal gyrusUBERON:000277198.02gold quality
right frontal lobeUBERON:000281097.96gold quality
Brodmann (1909) area 9UBERON:001354097.77gold quality
testisUBERON:000047397.75gold quality
frontal cortexUBERON:000187097.75gold quality
adult organismUBERON:000702397.70gold quality
neocortexUBERON:000195097.66gold quality
occipital lobeUBERON:000202197.54gold quality
dorsolateral prefrontal cortexUBERON:000983497.48gold quality
cingulate cortexUBERON:000302797.39gold quality
anterior cingulate cortexUBERON:000983597.39gold quality
cortical plateUBERON:000534397.19gold quality
medial globus pallidusUBERON:000247797.15gold quality
islet of LangerhansUBERON:000000697.14gold quality
amniotic fluidUBERON:000017397.09gold quality
pancreatic ductal cellCL:000207997.08gold quality
cerebral cortexUBERON:000095697.05gold quality
nucleus accumbensUBERON:000188296.93gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 2.

ExperimentMarker?Max mean expression
E-ANND-3yes9.38
E-CURD-112yes4.33
E-GEOD-75367no383.06

Regulation

Is transcription factor: no

miRNA regulators (miRDB)

109 targeting RETREG2, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-4692100.0067.322066
HSA-MIR-3613-3P100.0076.367965
HSA-MIR-4673100.0066.641490
HSA-MIR-340-5P100.0072.504437
HSA-MIR-4747-5P100.0067.902681
HSA-MIR-5196-5P100.0067.982761
HSA-MIR-12118100.0065.881270
HSA-MIR-451499.9967.101870
HSA-MIR-366299.9973.825684
HSA-MIR-371B-5P99.9975.344759
HSA-MIR-196A-1-3P99.9972.152772
HSA-MIR-548C-3P99.9974.017587
HSA-MIR-453199.9969.703181
HSA-MIR-480399.9871.993117
HSA-MIR-373-5P99.9875.364753
HSA-MIR-616-5P99.9875.584775
HSA-MIR-4645-5P99.9865.811284
HSA-MIR-6891-5P99.9866.531372
HSA-MIR-3173-3P99.9866.491217
HSA-MIR-3688-3P99.9772.022834
HSA-MIR-3065-5P99.9771.563281
HSA-MIR-548AA99.9670.643753
HSA-MIR-548AP-3P99.9670.643753
HSA-MIR-548T-3P99.9670.643753
HSA-MIR-497-5P99.9271.832674
HSA-MIR-145-5P99.9271.131836
HSA-MIR-5195-3P99.9270.921877
HSA-MIR-464899.9167.00710
HSA-MIR-15A-5P99.9072.802787
HSA-MIR-15B-5P99.9072.782798

Literature-anchored findings (GeneRIF, showing 2)

  • MAG-2 may be a novel causal gene for lung cancer invasion and metastasis. (PMID:19212629)
  • Depleting the endoplasmic reticulum-localized protein FAM134A impairs mitotic progression by affecting metaphase plate alignment and pressure generation by delocalizing cortical myosin II. (PMID:29097687)

Cross-species orthologs

2 orthologs

OrganismSymbolGene ID
mus_musculusRetreg2ENSMUSG00000049339
rattus_norvegicusRetreg2ENSRNOG00000018586

Protein

Protein identifiers

Reticulophagy regulator 2Q8NC44 (reviewed: Q8NC44)

All UniProt accessions (6): Q8NC44, C9J3K5, C9JIF3, F8WAL5, F8WE68, H7C3D5

UniProt curated annotations — full annotation on UniProt →

Function. Endoplasmic reticulum (ER)-anchored autophagy regulator which exists in an inactive state under basal conditions but is activated following cellular stress. When activated, induces ER fragmentation and mediates ER delivery into lysosomes through sequestration into autophagosomes via interaction with ATG8 family proteins. Required for collagen quality control in a LIR motif-independent manner.

Subunit / interactions. Interacts with ATG8 family modifier proteins MAP1LC3A, MAP1LC3B, MAP1LC3C, GABARAP, GABARAPL1 and GABARAPL2. Shows higher affinity for GABARAPL1 than for MAP1LC3B. Interacts with CANX.

Subcellular location. Endoplasmic reticulum membrane.

Domain organisation. The LIR motif interacts with ATG8 family proteins.

Similarity. Belongs to the RETREG family.

RefSeq proteins (3): NP_001308038, NP_001308039, NP_077269* (*=MANE)

Domains & families (InterPro)

IDNameType
IPR052114ER_autophagy_membrane_regFamily
IPR055257RETR2_RHDDomain
IPR057282RETREG1-3-like_RHDDomain

Pfam: PF24456

UniProt features (27 total): modified residue 10, compositionally biased region 4, region of interest 4, transmembrane region 3, sequence variant 2, chain 1, mutagenesis site 1, sequence conflict 1, short sequence motif 1

Structure

Experimental structures (PDB)

1 structures.

PDBMethodResolution (Å)
6EWCX-RAY DIFFRACTION3.2

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q8NC44-F159.840.00

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 (10): 279, 281, 283, 291, 311, 334, 337, 344, 347, 385

Mutagenesis-validated functional residues (1):

PositionPhenotype
492–495abolishes interaction with atg8 family proteins, induction of er fragmentation and er degradation.

Function

Pathways and Gene Ontology

Reactome pathways

0 pathways

MSigDB gene sets: 205 (showing top): GOBP_VACUOLE_ORGANIZATION, TGCTGCT_MIR15A_MIR16_MIR15B_MIR195_MIR424_MIR497, FOXO4_01, GOBP_MACROAUTOPHAGY, FREAC3_01, USF_01, KINSEY_TARGETS_OF_EWSR1_FLII_FUSION_DN, HFH4_01, GOBP_ORGANELLE_ASSEMBLY, GOBP_ENDOMEMBRANE_SYSTEM_ORGANIZATION, ACTTTAT_MIR1425P, NRF2_01, GCM_NF2, LIU_CMYB_TARGETS_UP, GOBP_ENDOPLASMIC_RETICULUM_ORGANIZATION

GO Biological Process (5): endoplasmic reticulum organization (GO:0007029), collagen catabolic process (GO:0030574), reticulophagy (GO:0061709), autophagy (GO:0006914), substrate localization to autophagosome (GO:0061753)

GO Molecular Function (2): endoplasmic reticulum-autophagosome adaptor activity (GO:0140506), protein binding (GO:0005515)

GO Cellular Component (3): endoplasmic reticulum membrane (GO:0005789), membrane (GO:0016020), endoplasmic reticulum (GO:0005783)

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
catabolic process2
organelle organization1
endomembrane system organization1
collagen metabolic process1
macroautophagy1
transmembrane transport1
process utilizing autophagic mechanism1
autophagosome assembly1
establishment of localization in cell1
autophagosome-membrane adaptor activity1
endoplasmic reticulum-organelle membrane tether activity1
binding1
organelle membrane1
nuclear outer membrane-endoplasmic reticulum membrane network1
endoplasmic reticulum subcompartment1
cellular anatomical structure1
cytoplasm1
endomembrane system1
intracellular membrane-bounded organelle1

Protein interactions and networks

STRING

1316 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
RETREG2GABARAPO95166781
RETREG2ARHGAP1Q07960598
RETREG2TEX264Q9Y6I9509
RETREG2SEC62Q99442470
RETREG2F5GZY7F5GZY7458
RETREG2GABARAPL2P60520450
RETREG2CCPG1Q9ULG6448
RETREG2F5H6H0F5H6H0434
RETREG2RTN3O95197395
RETREG2DPY19L4Q7Z388368
RETREG2ATL3Q6DD88359
RETREG2SHISAL2AQ6UWV7359
RETREG2VCF1Q969W3346
RETREG2CD300CQ08708316
RETREG2SLC33A1O00400308

IntAct

46 interactions, top by confidence:

ABTypeScore
CFTRESYT2psi-mi:“MI:2364”(proximity)0.710
RETREG2MAP1LC3Bpsi-mi:“MI:0915”(physical association)0.570
MAP1LC3BRETREG2psi-mi:“MI:0915”(physical association)0.570
HTR2CKLRG2psi-mi:“MI:0914”(association)0.530
GPR52SYNGR2psi-mi:“MI:0914”(association)0.530
ZDHHC11APOBpsi-mi:“MI:0914”(association)0.530
STSGJA1psi-mi:“MI:0914”(association)0.530
YIPF3TMEM120Bpsi-mi:“MI:0914”(association)0.530
MAP1LC3ARETREG2psi-mi:“MI:0915”(physical association)0.400
RETREG2GABARAPL1psi-mi:“MI:0915”(physical association)0.400
RETREG2GABARAPpsi-mi:“MI:0915”(physical association)0.400
Retreg2psi-mi:“MI:0915”(physical association)0.400
RETREG2SLC27A2psi-mi:“MI:0914”(association)0.350
ESYT2psi-mi:“MI:0914”(association)0.350
YIPF3TMEM223psi-mi:“MI:0914”(association)0.350
GRPRGPR89Apsi-mi:“MI:0914”(association)0.350
PVRQSOX1psi-mi:“MI:0914”(association)0.350
NBASpsi-mi:“MI:0914”(association)0.350
TMEM223psi-mi:“MI:0914”(association)0.350
ARL6IP1ESYT2psi-mi:“MI:0914”(association)0.350
CLTACLTBpsi-mi:“MI:0914”(association)0.350
TSPAN15TMEM223psi-mi:“MI:0914”(association)0.350
GPR17TMEM120Bpsi-mi:“MI:0914”(association)0.350
HCSTTMEM120Bpsi-mi:“MI:0914”(association)0.350
TSPAN31TMEM120Bpsi-mi:“MI:0914”(association)0.350
GPR52GPR89Apsi-mi:“MI:0914”(association)0.350

BioGRID (59): ATP5A1 (Affinity Capture-MS), ATP5F1 (Affinity Capture-MS), ATP5J (Affinity Capture-MS), ATP5O (Affinity Capture-MS), EIF5A (Affinity Capture-MS), GOLGA3 (Affinity Capture-MS), ABCD3 (Affinity Capture-MS), PRDX2 (Affinity Capture-MS), MRPL33 (Affinity Capture-MS), CHD1L (Affinity Capture-MS), ATP5H (Affinity Capture-MS), HPSE (Affinity Capture-MS), SLC27A2 (Affinity Capture-MS), SLC25A19 (Affinity Capture-MS), FAM134A (Affinity Capture-MS)

ESM2 similar proteins: A2A8U2, A4D2P6, A4IG66, A7MCY6, B5DF41, D4AE48, O15079, O75129, O97676, P12755, P36956, P53349, P56720, P85299, Q0QWG9, Q1JPG0, Q3B7M3, Q3MHU5, Q3TPJ7, Q3U0L2, Q504T8, Q50H33, Q5FVG6, Q5SNT2, Q60416, Q60698, Q66K64, Q6DVA0, Q6NS60, Q6NS82, Q6ZWB6, Q7L4E1, Q80U23, Q80U62, Q80Z10, Q812A5, Q86V42, Q86XL3, Q8C0R7, Q8CC12

Diamond homologs: Q0P4Z1, Q3MHU5, Q5E9K8, Q5FVM3, Q6NS82, Q86VR2, Q8NC44, Q8VE91, Q9CQV4, Q9H6L5

SIGNOR signaling

0 interactions.

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 45 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

GO biological processes:

GO termPartnersFoldFDR
mitophagy537.0×3e-05

Disease & clinical

Clinical variants and AI predictions

ClinVar

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

ClassificationCount (floor)
Pathogenic1
Likely pathogenic0
Uncertain significance74
Likely benign2
Benign0

Top pathogenic / likely-pathogenic (1)

Variant IDHGVSClassification
58844GRCh38/hg38 2q35-36.3(chr2:219081620-225430308)x1Pathogenic

SpliceAI

1497 predictions. Top by Δscore:

VariantEffectΔscore
2:219176756:TCA:Tdonor_loss1.0000
2:219176757:CACC:Cdonor_loss1.0000
2:219176758:A:ACdonor_gain1.0000
2:219176758:AC:Adonor_gain1.0000
2:219176758:ACCGT:Adonor_loss1.0000
2:219176759:C:CCdonor_gain1.0000
2:219176759:CC:Cdonor_gain1.0000
2:219176759:CCGTG:Cdonor_gain1.0000
2:219179029:GTGA:Gdonor_loss1.0000
2:219179731:A:AGacceptor_gain1.0000
2:219179732:G:GGacceptor_gain1.0000
2:219179732:GC:Gacceptor_gain1.0000
2:219180755:G:GGdonor_gain1.0000
2:219181060:A:AGacceptor_gain1.0000
2:219181061:G:GGacceptor_gain1.0000
2:219181086:T:TAacceptor_gain1.0000
2:219181201:GAGGA:Gdonor_gain1.0000
2:219181203:G:GTdonor_gain1.0000
2:219181203:GGA:Gdonor_gain1.0000
2:219181204:GA:Gdonor_gain1.0000
2:219181204:GAG:Gdonor_gain1.0000
2:219181206:G:GGdonor_gain1.0000
2:219181461:GTG:Gdonor_gain1.0000
2:219181609:C:Gacceptor_gain1.0000
2:219181611:T:Gacceptor_gain1.0000
2:219181621:ATCCT:Aacceptor_gain1.0000
2:219181625:T:TAacceptor_gain1.0000
2:219181634:T:TAacceptor_gain1.0000
2:219181636:CCAGG:Cacceptor_loss1.0000
2:219181637:CAG:Cacceptor_loss1.0000

AlphaMissense

3447 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
2:219181067:A:CS216R1.000
2:219181069:T:AS216R1.000
2:219181069:T:GS216R1.000
2:219178578:T:AW76R0.999
2:219178578:T:CW76R0.999
2:219180227:G:CK179N0.999
2:219180227:G:TK179N0.999
2:219180715:G:AG201R0.999
2:219180715:G:CG201R0.999
2:219180716:G:AG201E0.999
2:219180725:T:AV204D0.999
2:219181079:T:AW220R0.999
2:219181079:T:CW220R0.999
2:219181082:C:AP221T0.999
2:219181082:C:TP221S0.999
2:219181083:C:AP221H0.999
2:219181083:C:GP221R0.999
2:219181140:T:CL240P0.999
2:219181670:G:CA304P0.999
2:219181674:T:AI305N0.999
2:219181674:T:CI305T0.999
2:219181674:T:GI305S0.999
2:219181677:C:TT306I0.999
2:219181680:A:TD307V0.999
2:219178580:G:CW76C0.998
2:219178580:G:TW76C0.998
2:219178596:A:CS82R0.998
2:219178598:C:AS82R0.998
2:219178598:C:GS82R0.998
2:219180670:T:CF186L0.998

dbSNP variants (sampled 300 via entrez): RS1000345599 (2:219180999 G>A,C), RS1000748974 (2:219184784 A>C,G), RS1001202666 (2:219185105 G>A,T), RS1001287169 (2:219180975 T>G), RS1001401915 (2:219181945 A>T), RS1002407603 (2:219183333 ACT>A), RS1002962446 (2:219182259 G>T), RS1003268353 (2:219183067 C>A,G,T), RS1003270513 (2:219179255 T>A), RS1003309404 (2:219183352 T>C), RS1003447924 (2:219178090 C>A,G,T), RS1003821548 (2:219177824 C>A), RS1003824102 (2:219177779 A>G), RS1004064772 (2:219177978 A>C,G), RS1004336454 (2:219183319 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

4 associations (top):

StudyTraitp-value
GCST004625_58Monocyte count5.000000e-11
GCST012226_198Waist circumference adjusted for body mass index1.000000e-08
GCST90002389_4Lymphocyte percentage of white cells9.000000e-13
GCST90002398_116Neutrophil count1.000000e-11

EFO canonical traits (4, from GWAS)

EFO IDTrait name
EFO:0005091monocyte count
EFO:0007789BMI-adjusted waist circumference
EFO:0007993lymphocyte percentage of leukocytes
EFO:0004833neutrophil count

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

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

CTD chemical–gene interactions

25 total (human), top 25 by PubMed support.

ChemicalActions (top 5)PubMed papers
bisphenol Adecreases expression, increases expression3
FR900359affects phosphorylation1
triphenyl phosphateaffects expression1
sodium arseniteincreases expression1
perfluorooctanoic aciddecreases expression1
nickel sulfateincreases expression1
coumarinaffects phosphorylation1
2-palmitoylglycerolincreases expression1
eprenetapoptaffects expression, affects reaction1
jinfukangincreases expression, affects cotreatment1
Resveratrolaffects cotreatment, decreases expression1
Sunitinibincreases expression1
Acetaminophenincreases expression1
Vehicle Emissionsincreases abundance, decreases expression1
Cadmiumincreases abundance, increases expression1
Caffeineaffects phosphorylation1
Cisplatinaffects cotreatment, increases expression1
Leadaffects expression1
Phenylmercuric Acetateincreases expression1
Plant Extractsaffects cotreatment, decreases expression1
Seleniumincreases expression1
Valproic Acidincreases expression1
Cadmium Chlorideincreases abundance, increases expression1
Vitamin K 3affects expression1
Particulate Matterdecreases expression, increases abundance1

Cellosaurus cell lines

15 cell lines: 15 embryonic stem cell

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_D1IBH9 AAVS1-TRE3G-NGN2 RETREG3-/- RETREG2-/-Embryonic stem cellFemale
CVCL_D1ICH9 AAVS1-TRE3G-NGN2 RETREG3-/- RETREG2-/- RETREG1-/-Embryonic stem cellFemale
CVCL_D1IDH9 AAVS1-TRE3G-NGN2 RETREG3-/- RETREG2-/- RETREG1-/- TEX264-/-Embryonic stem cellFemale
CVCL_D1IEH9 AAVS1-TRE3G-NGN2 RETREG3-/- RETREG2-/- RETREG1-/- TEX264-/- CCPG1-/-Embryonic stem cellFemale
CVCL_D1IGH9 AAVS1-TRE3G-NGN2 RETREG2-/-Embryonic stem cellFemale
CVCL_D1IRH9 AAVS1-TRE3G-NGN2 RETREG3-/- RETREG2-/- Keima-RAMP4Embryonic stem cellFemale
CVCL_D1ISH9 AAVS1-TRE3G-NGN2 RETREG3-/- RETREG2-/- Keima-REEP5Embryonic stem cellFemale
CVCL_D1ITH9 AAVS1-TRE3G-NGN2 RETREG3-/- RETREG2-/- RETREG1-/- Keima-RAMP4Embryonic stem cellFemale
CVCL_D1IUH9 AAVS1-TRE3G-NGN2 RETREG3-/- RETREG2-/- RETREG1-/- Keima-REEP5Embryonic stem cellFemale
CVCL_D1IVH9 AAVS1-TRE3G-NGN2 RETREG3-/- RETREG2-/- RETREG1-/- TEX264-/- Keima-RAMP4Embryonic stem cellFemale

Clinical trials (associated diseases)

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

No linked Atlas pages yet — the cross-entity mesh grows as the corpus expands.