Fam20a (FAM20A, golgi associated secretory pathway pseudokinase) - Rat Genome Database

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Gene: Fam20a (FAM20A, golgi associated secretory pathway pseudokinase) Mus musculus
Analyze
Symbol: Fam20a
Name: FAM20A, golgi associated secretory pathway pseudokinase
RGD ID: 1314940
MGI Page MGI
Description: Predicted to enable protein serine/threonine kinase activator activity. Involved in positive regulation of protein phosphorylation. Acts upstream of or within enamel mineralization and response to bacterium. Located in Golgi apparatus and endoplasmic reticulum. Is expressed in several structures, including adipose tissue; alimentary system; central nervous system; genitourinary system; and respiratory system. Human ortholog(s) of this gene implicated in amelogenesis imperfecta type 1G. Orthologous to human FAM20A (FAM20A golgi associated secretory pathway pseudokinase).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: AI606893; family with sequence similarity 20, member A; ortholog of human family with sequence similarity 20, member A FAM20A; pseudokinase FAM20A
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911109,563,752 - 109,613,989 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11109,560,575 - 109,613,105 (-)EnsemblGRCm39 Ensembl
GRCm3811109,669,746 - 109,723,163 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11109,669,749 - 109,722,279 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711109,534,240 - 109,583,570 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611109,489,016 - 109,538,346 (-)NCBIMGSCv36mm8
Celera11121,411,437 - 121,460,788 (-)NCBICelera
Cytogenetic Map11E1NCBI
cM Map1172.37NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
2. Mouse MP Annotation Import Pipeline RGD automated import pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:15489334   PMID:15676076   PMID:16141072   PMID:16141073   PMID:20847595   PMID:21267068  
PMID:21491433   PMID:21549343   PMID:21677750   PMID:21873635   PMID:22732358   PMID:22900076   PMID:23012479   PMID:23468644   PMID:24006456   PMID:24194600   PMID:25789606   PMID:26273529  
PMID:27281036   PMID:27626380   PMID:31667691   PMID:35278791   PMID:37625561  


Genomics

Comparative Map Data
Fam20a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911109,563,752 - 109,613,989 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11109,560,575 - 109,613,105 (-)EnsemblGRCm39 Ensembl
GRCm3811109,669,746 - 109,723,163 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11109,669,749 - 109,722,279 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711109,534,240 - 109,583,570 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611109,489,016 - 109,538,346 (-)NCBIMGSCv36mm8
Celera11121,411,437 - 121,460,788 (-)NCBICelera
Cytogenetic Map11E1NCBI
cM Map1172.37NCBI
FAM20A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381768,535,116 - 68,601,367 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1768,535,113 - 68,601,367 (-)EnsemblGRCh38hg38GRCh38
GRCh371766,531,257 - 66,597,508 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361764,044,860 - 64,108,690 (-)NCBINCBI36Build 36hg18NCBI36
Build 341764,044,859 - 64,108,690NCBI
Celera1763,103,046 - 63,168,874 (-)NCBICelera
Cytogenetic Map17q24.2NCBI
HuRef1761,916,991 - 61,982,775 (-)NCBIHuRef
CHM1_11766,596,013 - 66,662,169 (-)NCBICHM1_1
T2T-CHM13v2.01769,411,970 - 69,478,232 (-)NCBIT2T-CHM13v2.0
Fam20a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81095,136,799 - 95,197,176 (-)NCBIGRCr8
mRatBN7.21094,638,836 - 94,697,814 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1094,642,850 - 94,697,672 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1099,700,773 - 99,754,553 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01099,163,851 - 99,217,638 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01094,573,768 - 94,627,735 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01097,962,467 - 98,017,171 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1097,962,693 - 98,018,014 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01097,676,935 - 97,731,346 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41099,113,846 - 99,170,601 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11099,128,215 - 99,184,971 (-)NCBI
Celera1093,301,687 - 93,354,956 (-)NCBICelera
Cytogenetic Map10q32.1NCBI
Fam20a
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554784,182,568 - 4,236,819 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554784,182,568 - 4,236,819 (+)NCBIChiLan1.0ChiLan1.0
FAM20A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21984,565,750 - 84,629,761 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11789,382,665 - 89,450,156 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01762,474,317 - 62,537,800 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11767,863,696 - 67,927,152 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1767,864,331 - 67,927,128 (-)Ensemblpanpan1.1panPan2
FAM20A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1915,205,887 - 15,218,873 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl915,207,300 - 15,230,447 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha916,099,687 - 16,148,637 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0916,869,162 - 16,918,170 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl916,869,235 - 16,918,839 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1915,814,064 - 15,862,997 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0911,670,022 - 11,719,172 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0911,670,116 - 11,719,124 (+)NCBIUU_Cfam_GSD_1.0
Fam20a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560211,279,020 - 11,326,742 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365417,867,303 - 7,916,154 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365417,867,856 - 7,916,145 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM20A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1211,607,034 - 11,657,737 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11211,606,469 - 11,663,086 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21212,098,062 - 12,124,101 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FAM20A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11652,955,411 - 53,017,263 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1652,955,714 - 53,016,909 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607723,883,015 - 23,945,225 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam20a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248703,577,386 - 3,632,967 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248703,576,995 - 3,632,964 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fam20a
1829 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:848
Count of miRNA genes:451
Interacting mature miRNAs:538
Transcripts:ENSMUST00000020938, ENSMUST00000144972, ENSMUST00000146408, ENSMUST00000155559
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
11038695Par8_mpulmonary adenoma resistance 8 (mouse)1177063779111063918Mouse
1301414Heal10_mwound healing/regeneration 10 (mouse)Not determined1177437183111437322Mouse
10045616Heal25_mwound healing/regeneration 25 (mouse)Not determined1177437183111437322Mouse
10413882Moe1_mmodifier of epilepsy 1 (mouse)1177770978111771099Mouse
14746970Manh71_mmandible shape 71 (mouse)1179416257113416257Mouse
1300649Crhq1_mcompensatory renal hypertrophy QTL 1 (mouse)Not determined1181574481115574636Mouse
1300766Skull16_mskull morphology 16 (mouse)Not determined1181574481115574636Mouse
10412288Carg4_mCandida albicans resistance gene 4 (mouse)Not determined1181810267115810267Mouse
1301072Eae22_mexperimental allergic encephalomyelitis 22 (mouse)Not determined1182377698116377820Mouse
14747003Mancz9_mmandible centroid size 9 (mouse)1185844911119844911Mouse
15039374Adip29_madiposity 29 (mouse)1186608320120608320Mouse
15039376Bw42_mbody weight QTL 42 (mouse)1186608320120608320Mouse
15014785Mvlq1_mmacrovesicular liver lesion QTL 1 (mouse)1186608320120608320Mouse
27226789Feml16_mfemur length 16, 10 week (mouse)1187490826121873369Mouse
10044007Hbnr14_mHeligmosomoides bakeri nematode resistance 14 (mouse)Not determined1187502600121502698Mouse
11251723Ewc5_methanol withdrawal and consumption 5 (mouse)1189869251121973369Mouse
1558753Ath19_matherosclerosis 19 (mouse)Not determined1191604608121973369Mouse
1302034Pkccl_mprotein kinase C content in lungs (mouse)Not determined1191604608121973369Mouse
10045617Heal26_mwound healing/regeneration 26 (mouse)Not determined1192939373112544554Mouse
1301095El6_mepilepsy 6 (mouse)Not determined1193229183121973369Mouse
4141939Pregq2_mpregnancy QTL 2 (mouse)Not determined1194063779118022724Mouse
27226731Tibmd4_mtibia midshaft diameter 4, 10 week (mouse)1194190826118890826Mouse
4141465Dbm2_mdiabetes modifier 2 (mouse)Not determined94437183118022724Mouse
1301958Alcp18_malcohol preference locus 18 (mouse)Not determined1195403965121973369Mouse
1300944Alcp20_malcohol preference locus 20 (mouse)Not determined1195403965121973369Mouse
1300962Cd8mts4_mCD8 memory T cell subset 4 (mouse)Not determined1196137674121973369Mouse
1301057Nidd4_mnon-insulin-dependent diabetes mellitus 4 (mouse)Not determined1196810136121973369Mouse
12910539Sstapa3_msuseptibility to Staphylococcus aureus infection 3 (mouse)1196897693110603991Mouse
1301983Berr2_mberghei resistance locus 2 (mouse)Not determined1198352609121973369Mouse
10043976Obq33_mobesity QTL 33 (mouse)Not determined1198500469121973369Mouse
10044001Alcw8_malcohol withdrawal 8 (mouse)Not determined1199254187121973369Mouse
11553867Stmm5_mskin tumor modifier of MSM 5 (mouse)11100058103121973369Mouse
11341721Rvfs2_mRift Valley fever susceptibility 2 (mouse)11100254186120887165Mouse
1301012Vispl_mvisual placing (mouse)Not determined11101022590121973369Mouse
14700693Ppiq12_mprepulse inhibition QTL 12 (mouse)11101504820114472363Mouse
14700694Ppiq13_mprepulse inhibition QTL 13 (mouse)11101504820114472363Mouse
14700695Ppiq14_mprepulse inhibition QTL 14 (mouse)11101504820114472363Mouse
14700696Ppiq15_mprepulse inhibition QTL 15 (mouse)11101504820114472363Mouse
1300957Pbd1_mpeak bone density 1 (mouse)Not determined11102344123112384123Mouse
4141612Cia40_mcollagen induced arthritis 40 (mouse)Not determined11103273992115021444Mouse
4141702Hmtb6_mhemostasis and thrombosis rebleeding time 6 (mouse)Not determined107616344110519830Mouse
25394549Skmw73_mskeletal muscle weight 73, TA (mouse)11108075469109683601Mouse

Markers in Region
AI606893  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm3811109,672,980 - 109,673,118UniSTSGRCm38
MGSCv3711109,534,294 - 109,534,432UniSTSGRCm37
Celera11121,411,491 - 121,411,629UniSTS
Cytogenetic Map11E1UniSTS
Whitehead/MRC_RH111486.15UniSTS


Expression


Sequence


RefSeq Acc Id: ENSMUST00000020938   ⟹   ENSMUSP00000020938
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11109,563,752 - 109,613,082 (-)Ensembl
GRCm38.p6 Ensembl11109,672,926 - 109,722,256 (-)Ensembl
RefSeq Acc Id: ENSMUST00000144972
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11109,565,465 - 109,573,805 (-)Ensembl
GRCm38.p6 Ensembl11109,674,639 - 109,682,979 (-)Ensembl
RefSeq Acc Id: ENSMUST00000146408
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11109,564,300 - 109,567,248 (-)Ensembl
GRCm38.p6 Ensembl11109,673,474 - 109,676,422 (-)Ensembl
RefSeq Acc Id: ENSMUST00000155559   ⟹   ENSMUSP00000116687
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl11109,560,575 - 109,613,105 (-)Ensembl
GRCm38.p6 Ensembl11109,669,749 - 109,722,279 (-)Ensembl
RefSeq Acc Id: NM_153782   ⟹   NP_722477
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3911109,563,752 - 109,613,064 (-)NCBI
GRCm3811109,672,926 - 109,722,238 (-)NCBI
MGSCv3711109,534,240 - 109,583,570 (-)RGD
Celera11121,411,437 - 121,460,788 (-)RGD
cM Map11 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_006532724   ⟹   XP_006532787
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3911109,563,752 - 109,581,288 (-)NCBI
GRCm3811109,669,746 - 109,690,462 (-)NCBI
Sequence:
RefSeq Acc Id: XR_388388
Type: NON-CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3911109,563,752 - 109,613,989 (-)NCBI
GRCm3811109,672,926 - 109,723,163 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_722477 (Get FASTA)   NCBI Sequence Viewer  
  XP_006532787 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH29169 (Get FASTA)   NCBI Sequence Viewer  
  EDL34369 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000020938
  ENSMUSP00000020938.8
  ENSMUSP00000116687.2
GenBank Protein Q8CID3 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_722477   ⟸   NM_153782
- Peptide Label: precursor
- UniProtKB: Q8CID3 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_006532787   ⟸   XM_006532724
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSMUSP00000020938   ⟸   ENSMUST00000020938
RefSeq Acc Id: ENSMUSP00000116687   ⟸   ENSMUST00000155559

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8CID3-F1-model_v2 AlphaFold Q8CID3 1-541 view protein structure

Promoters
RGD ID:6820477
Promoter ID:MM_KWN:10388
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Liver,   Lung,   MEF_B4,   MEF_B6
Transcripts:UC007MCW.1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3611109,583,006 - 109,583,867 (-)MPROMDB
RGD ID:8677198
Promoter ID:EPDNEW_M16629
Type:initiation region
Name:Fam20a_1
Description:Mus musculus family with sequence similarity 20, member A , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3811109,722,238 - 109,722,298EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2388266 AgrOrtholog
Ensembl Genes ENSMUSG00000020614 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000020938 ENTREZGENE
  ENSMUST00000020938.8 UniProtKB/Swiss-Prot
  ENSMUST00000155559.8 UniProtKB/Swiss-Prot
InterPro FAM20 UniProtKB/Swiss-Prot
  FAM20_C UniProtKB/Swiss-Prot
KEGG Report mmu:208659 UniProtKB/Swiss-Prot
MGD MGI:2388266 ENTREZGENE
NCBI Gene 208659 ENTREZGENE
PANTHER PSEUDOKINASE FAM20A UniProtKB/Swiss-Prot
  PTHR12450 UniProtKB/Swiss-Prot
Pfam Fam20C UniProtKB/Swiss-Prot
PhenoGen Fam20a PhenoGen
UniProt FA20A_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-11-03 Fam20a  FAM20A, golgi associated secretory pathway pseudokinase  Fam20a  family with sequence similarity 20, member A  Symbol and/or name change 5135510 APPROVED