Fam209 (family with sequence similarity 209) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Fam209 (family with sequence similarity 209) Mus musculus
Analyze
Symbol: Fam209
Name: family with sequence similarity 209
RGD ID: 1317212
MGI Page MGI
Description: Involved in acrosome assembly. Located in nuclear inner membrane. Is expressed in testis. Orthologous to human FAM209A (family with sequence similarity 209 member A) and FAM209B (family with sequence similarity 209 member B).
Type: protein-coding
RefSeq Status: PREDICTED
Previously known as: 1700029J11Rik; hypothetical protein LOC76426; likely orthologue of H. sapiens chromosome 20 open reading frame 106 (C20orf106); RP23-228E2.7; uncharacterized protein LOC76426
RGD Orthologs
Human
Rat
Bonobo
Dog
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
GRCm392172,314,474 - 172,316,236 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2172,314,440 - 172,316,251 (+)EnsemblGRCm39 Ensembl
GRCm382172,472,554 - 172,474,316 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2172,472,520 - 172,474,331 (+)EnsemblGRCm38mm10GRCm38
MGSCv372172,298,054 - 172,299,816 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362172,163,733 - 172,165,536 (+)NCBIMGSCv36mm8
Celera2178,434,213 - 178,435,975 (+)NCBICelera
Cytogenetic Map2H3NCBI
cM Map294.87NCBI
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

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View

Mammalian Phenotype
References

References - curated
# Reference Title Reference Citation
1. Electronic Transfer of Homolog Data MGD and Homologene mouse data transfer
2. Mouse MP Annotation Import Pipeline RGD automated import pipeline
3. 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:11125038   PMID:11217851   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21267068   PMID:21677750   PMID:24194600  
PMID:27626380   PMID:31146259   PMID:34471926  


Genomics

Comparative Map Data
Fam209
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm392172,314,474 - 172,316,236 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl2172,314,440 - 172,316,251 (+)EnsemblGRCm39 Ensembl
GRCm382172,472,554 - 172,474,316 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl2172,472,520 - 172,474,331 (+)EnsemblGRCm38mm10GRCm38
MGSCv372172,298,054 - 172,299,816 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv362172,163,733 - 172,165,536 (+)NCBIMGSCv36mm8
Celera2178,434,213 - 178,435,975 (+)NCBICelera
Cytogenetic Map2H3NCBI
cM Map294.87NCBI
FAM209B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh382056,533,246 - 56,536,520 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl2056,533,246 - 56,536,520 (+)EnsemblGRCh38hg38GRCh38
GRCh372055,108,302 - 55,111,576 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 362054,541,709 - 54,544,983 (+)NCBINCBI36Build 36hg18NCBI36
Celera2051,848,734 - 51,852,008 (+)NCBICelera
Cytogenetic Map20q13.31NCBI
HuRef2051,892,678 - 51,895,950 (+)NCBIHuRef
CHM1_12055,009,547 - 55,012,798 (+)NCBICHM1_1
T2T-CHM13v2.02058,310,734 - 58,314,011 (+)NCBIT2T-CHM13v2.0
Fam209
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr83181,658,479 - 181,660,164 (+)NCBIGRCr8
mRatBN7.23161,240,062 - 161,241,747 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl3161,240,034 - 161,241,755 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx3165,049,976 - 165,051,661 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.03173,548,998 - 173,550,683 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.03171,290,817 - 171,292,502 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.03170,475,831 - 170,477,516 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl3170,475,831 - 170,477,516 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.03176,551,257 - 176,552,942 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.43163,382,104 - 163,383,789 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.13163,288,186 - 163,289,828 (+)NCBI
Celera3160,439,543 - 160,441,228 (+)NCBICelera
Cytogenetic Map3q42NCBI
FAM209B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22162,279,189 - 62,287,897 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan12062,272,304 - 62,279,758 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v02052,865,695 - 52,878,805 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.12054,155,508 - 54,163,919 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2054,161,366 - 54,163,910 (+)Ensemblpanpan1.1panPan2
LOC611771
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12441,710,637 - 41,712,305 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2440,958,180 - 40,959,840 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02442,473,409 - 42,475,068 (+)NCBIROS_Cfam_1.0
UMICH_Zoey_3.12441,660,898 - 41,662,558 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02441,800,163 - 41,801,823 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02442,458,447 - 42,460,107 (+)NCBIUU_Cfam_GSD_1.0
FAM209B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1757,087,126 - 57,088,944 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11757,087,126 - 57,088,955 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21764,198,764 - 64,200,593 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103243877
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.127,576,393 - 7,596,092 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366605055,649,449 - 55,669,450 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam209b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462474123,201,781 - 23,204,038 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fam209
68 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:97
Count of miRNA genes:96
Interacting mature miRNAs:97
Transcripts:ENSMUST00000029007
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
5491196Mobq6_mmultigenic obesity QTL 6 (mouse)Not determined285724269180896594Mouse
1301618Bglu1_mblood glucose level 1 (mouse)Not determined2117942930174324863Mouse
11341717Rvfs1_mRift Valley fever susceptibility 1 (mouse)2135432544173449616Mouse
1300846Pbwg11_mpostnatal body weight growth 11 (mouse)Not determined2138966600172966729Mouse
11353826Bdln10_mbody length 10 (mouse)2140441482174441482Mouse
12801461Intim1_mintima modifier 1 (mouse)2142428347176428450Mouse
12801456Intmrm1_mintima/media ratio modifier 1 (mouse)2142428347176428450Mouse
1301783Bhr1_mbronchial hyperresponsiveness 1 (mouse)Not determined2142593476178442452Mouse
1300867Lore2_mloss of righting induced by ethanol 2 (mouse)Not determined2144515861180896594Mouse
1302013Tbbmd3_mtotal body bone mineral density 3 (mouse)Not determined2145196949179197085Mouse
1300806Aod4_mautoimmune ovarian dysgenesis 4 (mouse)Not determined2145228719179228841Mouse
1301865Hdlq19_mHDL QTL 19 (mouse)Not determined2145518775179518926Mouse
12790983Bwq12_mbody weight QTL 12 (mouse)2148238204181755017Mouse
4142211Nilac3_mnicotine induced locomotor activity 3 (mouse)Not determined2148664893181755017Mouse
1558917Gct8_mgranulosa cell tumorigenesis 8 (mouse)Not determined2149236907181755017Mouse
1300751Bdt1_mbone density traits 1 (mouse)Not determined2149988902181755017Mouse
1301085Lrnx10_mlearning-contextual 10 (mouse)Not determined2150212221181755017Mouse
11038701Ltpr2e_mLeishmania tropica response 2e (mouse)2150212221181755017Mouse
4142450Lmr16_mleishmaniasis resistance 16 (mouse)Not determined2150212221181755017Mouse
12910520Scgq3_mspontaneous crescentic glomerulonephritis QTL 3 (mouse)2151709273174389124Mouse
1301019Bmd6_mbone mineral density 6 (mouse)Not determined2151778297181755017Mouse
14747002Mancz3_mmandible centroid size 3 (mouse)2152329820181755017Mouse
1300622Cfld1_mcystic fibrosis lung disease 1 (mouse)Not determined2155823920181755017Mouse
1357537Lith12_mlithogenic gene 12 (mouse)Not determined2156196464181755017Mouse
1300688Nidd2k_mNidd2 on KK-A (mouse)Not determined2158078337178442452Mouse
1302003Sluc17_msusceptibility to lung cancer 17 (mouse)Not determined2162433493181755017Mouse
1558991Tailq4_mtail length QTL 4 (mouse)Not determined2162736926178442452Mouse
1357435Epfq2_mepididymal fat pad weight QTL 2 (mouse)Not determined2162736926178442452Mouse
1301677Alcp6_malcohol preference locus 6 (mouse)Not determined2163486407181755017Mouse
1301348Alcp5_malcohol preference locus 5 (mouse)Not determined2163486407181755017Mouse
1300676Prdt2_mprion disease incubation time 2 (mouse)Not determined2164515154181755017Mouse
12738409Lfibq1_mliver fibrosis QTL 1 (mouse)2167716420179207088Mouse
1357685Skts13_mskin tumor sucseptibility 13 (mouse)Not determined2168623533172405326Mouse
12910811Pwbwq3_mpre-weaning body weight QTL 3 (mouse)2169794802178920791Mouse


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000029007   ⟹   ENSMUSP00000029007
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl2172,314,440 - 172,316,251 (+)Ensembl
GRCm38.p6 Ensembl2172,472,520 - 172,474,331 (+)Ensembl
RefSeq Acc Id: NM_029608   ⟹   NP_083884
RefSeq Status: PREDICTED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm392172,314,474 - 172,316,236 (+)NCBI
GRCm382172,472,554 - 172,474,316 (+)ENTREZGENE
MGSCv372172,298,054 - 172,299,816 (+)RGD
Celera2178,434,213 - 178,435,975 (+)RGD
cM Map2 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_083884 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein A2APA5 (Get FASTA)   NCBI Sequence Viewer  
  AAI37933 (Get FASTA)   NCBI Sequence Viewer  
  AAI37934 (Get FASTA)   NCBI Sequence Viewer  
  BAB24622 (Get FASTA)   NCBI Sequence Viewer  
  EDL06608 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000029007
  ENSMUSP00000029007.3
Reference Protein Sequences
RefSeq Acc Id: NP_083884   ⟸   NM_029608
- Peptide Label: precursor
- UniProtKB: Q9D9T2 (UniProtKB/Swiss-Prot),   A2APA5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000029007   ⟸   ENSMUST00000029007

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A2APA5-F1-model_v2 AlphaFold A2APA5 1-170 view protein structure

Promoters
RGD ID:6832424
Promoter ID:MM_KWN:33242
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   Kidney,   Liver,   Lung,   MEF_B6,   Spleen
Transcripts:OTTMUST00000038957
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv362172,297,226 - 172,298,477 (+)MPROMDB
RGD ID:6879898
Promoter ID:EPDNEW_M3400
Type:initiation region
Name:Fam209_1
Description:Mus musculus family with sequence similarity 209 , 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
GRCm382172,472,528 - 172,472,588EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1923676 AgrOrtholog
Ensembl Genes ENSMUSG00000027505 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000029007 ENTREZGENE
  ENSMUST00000029007.3 UniProtKB/Swiss-Prot
InterPro FAM209 UniProtKB/Swiss-Prot
KEGG Report mmu:76426 UniProtKB/Swiss-Prot
MGD MGI:1923676 ENTREZGENE
NCBI Gene 76426 ENTREZGENE
PANTHER PROTEIN FAM209A UniProtKB/Swiss-Prot
  PTHR35157 UniProtKB/Swiss-Prot
Pfam FAM209 UniProtKB/Swiss-Prot
PhenoGen Fam209 PhenoGen
UniProt A2APA5 ENTREZGENE, UniProtKB/Swiss-Prot
  Q9D9T2 ENTREZGENE
UniProt Secondary Q9D9T2 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-11-27 Fam209  family with sequence similarity 209  1700029J11Rik  RIKEN cDNA 1700029J11 gene  Symbol and/or name change 5135510 APPROVED