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

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Gene: Fam209 (family with sequence similarity 209) Rattus norvegicus
Analyze
Symbol: Fam209
Name: family with sequence similarity 209
RGD ID: 1307805
Description: Predicted to be involved in acrosome assembly. Predicted to be located in nuclear inner membrane. Orthologous to several human genes including FAM209B (family with sequence similarity 209 member B); INTERACTS WITH bisphenol A; fenvalerate; tributylstannane.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Fam209a; family with sequence similarity 209 member B; family with sequence similarity 209, member A; hypothetical LOC296411; hypothetical protein LOC296411; LOC296411; RGD1307805; uncharacterized protein LOC296411
RGD Orthologs
Human
Mouse
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
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
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

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21630459  


Genomics

Comparative Map Data
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
(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
(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
(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
2 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:11
Count of miRNA genes:11
Interacting mature miRNAs:11
Transcripts:ENSRNOT00000006949
Prediction methods:Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70216Cm14Cardiac mass QTL 142.1heart mass (VT:0007028)heart wet weight (CMO:0000069)331172320163586636Rat
1559282Emca5Estrogen-induced mammary cancer QTL 53.9mammary gland integrity trait (VT:0010552)percentage of study population developing mammary tumors during a period of time (CMO:0000948)343827364169034231Rat
1581568Rf53Renal function QTL 53urine total protein amount (VT:0000032)urine protein excretion rate to body weight ratio (CMO:0001099)356395968161299569Rat
2312659Slep7Serum leptin concentration QTL 70.001blood leptin amount (VT:0005667)serum leptin level (CMO:0000780)398535255168026850Rat
2312670Bw94Body weight QTL 940.01inguinal fat pad mass (VT:0010424)inguinal fat pad weight to body weight ratio (CMO:0001253)398535255168026850Rat
2312673Scl63Serum cholesterol level QTL 630.001blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)398535255168026850Rat
2302373Gluco39Glucose level QTL 395.01blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)398535386161695835Rat
1576306Schws3Schwannoma susceptibility QTL 30.001nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)3118839124163839124Rat
1598877Bp285Blood pressure QTL 2851.50.03arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3120538241165538241Rat
10755461Coatc16Coat color QTL 16coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)3122438700167438700Rat
631541Bp81Blood pressure QTL 814arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3124122556169034231Rat
2303620Vencon4Ventilatory control QTL 43.9respiration trait (VT:0001943)tidal volume (CMO:0000222)3127162703168026850Rat
631673Iddm13Insulin dependent diabetes mellitus QTL 131.30.663blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)3130193298161695983Rat
1578656Vnigr2Vascular neointimal growth QTL 24.2artery morphology trait (VT:0002191)lesioned artery residual lumen area (CMO:0001417)3130656562169034231Rat
1578653Vnigr3Vascular neointimal growth QTL 33.1artery morphology trait (VT:0002191)artery neointimal hyperplastic lesion area (CMO:0001414)3130656562169034231Rat
9589106Insul23Insulin level QTL 2313.860.001blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)3131635904169034231Rat
2298477Eau4Experimental allergic uveoretinitis QTL 40.0011uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)3137398739169034231Rat
8552952Pigfal13Plasma insulin-like growth factor 1 level QTL 13blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)3138799500169034231Rat
1298068Bp167Blood pressure QTL 1670.004arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3141074471169034231Rat
1331726Bp208Blood pressure QTL 2083.129arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3141339013162184794Rat
2317883Alcrsp26Alcohol response QTL 261.80.63response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)3145526770169034231Rat
12879871Am7Aortic mass QTL 70.001aorta mass (VT:0002845)aorta weight to aorta length to body weight ratio (CMO:0002722)3145925360166177555Rat
12879872Cm97Cardiac mass QTL 970.001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3145925360166177555Rat
12879873Cm96Cardiac mass QTL 960.001heart mass (VT:0007028)heart wet weight to body weight ratio (CMO:0002408)3145925360166177555Rat
12879874Cm98Cardiac mass QTL 980.005heart right ventricle mass (VT:0007033)heart right ventricle weight to body weight ratio (CMO:0000914)3145925360166177555Rat
12879875Kidm64Kidney mass QTL 640.001kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3145925360166177555Rat
12879876Bw182Body weight QTL 1820.003body mass (VT:0001259)body weight (CMO:0000012)3145925360166177555Rat
2301411Bp320Blood pressure QTL 3200.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)3145925360166177555Rat
1598854Memor10Memory QTL 102exploratory behavior trait (VT:0010471)average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)3145956084161299569Rat
8552791Vie2Viral induced encephalitis QTL 24.1brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)3145956084169034231Rat
1578666Vnigr1Vascular neointimal growth QTL 14.6artery morphology trait (VT:0002191)artery lumen area (CMO:0001409)3149040888168026850Rat
1300161Rf10Renal function QTL 103.57renal blood flow trait (VT:2000006)absolute change in renal vascular resistance (CMO:0001900)3161192952169034231Rat

Markers in Region
BF404558  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.23161,241,405 - 161,241,606 (+)MAPPERmRatBN7.2
Rnor_6.03170,477,175 - 170,477,375NCBIRnor6.0
Rnor_5.03176,552,601 - 176,552,801UniSTSRnor5.0
RGSC_v3.43163,383,448 - 163,383,648UniSTSRGSC3.4
Celera3160,440,887 - 160,441,087UniSTS
RH 3.4 Map31496.8UniSTS
Cytogenetic Map3q42UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 7
Low 2 2 1 1 1 3 1 1
Below cutoff 2 12 29 19 14 19 4 6 52 10 16 9 4

Sequence


RefSeq Acc Id: ENSRNOT00000006949   ⟹   ENSRNOP00000006949
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3161,240,062 - 161,241,747 (+)Ensembl
Rnor_6.0 Ensembl3170,475,831 - 170,477,516 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113984   ⟹   ENSRNOP00000077031
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl3161,240,034 - 161,241,755 (+)Ensembl
RefSeq Acc Id: NM_001106548   ⟹   NP_001100018
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr83181,658,479 - 181,660,164 (+)NCBI
mRatBN7.23161,240,062 - 161,241,747 (+)NCBI
Rnor_6.03170,475,831 - 170,477,516 (+)NCBI
Rnor_5.03176,551,257 - 176,552,942 (+)NCBI
RGSC_v3.43163,382,104 - 163,383,789 (+)RGD
Celera3160,439,543 - 160,441,228 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100018 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL85140 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000006949
  ENSRNOP00000006949.4
  ENSRNOP00000077031.1
RefSeq Acc Id: NP_001100018   ⟸   NM_001106548
- Peptide Label: precursor
- UniProtKB: D3ZKD8 (UniProtKB/TrEMBL),   A6KKX6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000006949   ⟸   ENSRNOT00000006949
RefSeq Acc Id: ENSRNOP00000077031   ⟸   ENSRNOT00000113984

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZKD8-F1-model_v2 AlphaFold D3ZKD8 1-170 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13692708
Promoter ID:EPDNEW_R3232
Type:initiation region
Name:Fam209a_1
Description:family with sequence similarity 209, member A
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.03170,475,813 - 170,475,873EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1307805 AgrOrtholog
BioCyc Gene G2FUF-46536 BioCyc
Ensembl Genes ENSRNOG00000005235 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000006949 ENTREZGENE
  ENSRNOT00000006949.6 UniProtKB/TrEMBL
  ENSRNOT00000113984.1 UniProtKB/TrEMBL
InterPro FAM209 UniProtKB/TrEMBL
KEGG Report rno:296411 UniProtKB/TrEMBL
NCBI Gene 296411 ENTREZGENE
PANTHER PROTEIN FAM209A UniProtKB/TrEMBL
  PTHR35157 UniProtKB/TrEMBL
Pfam FAM209 UniProtKB/TrEMBL
PhenoGen Fam209 PhenoGen
RatGTEx ENSRNOG00000005235 RatGTEx
UniProt A0A8I5Y726_RAT UniProtKB/TrEMBL
  A6KKX6 ENTREZGENE, UniProtKB/TrEMBL
  D3ZKD8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2020-04-17 Fam209  family with sequence similarity 209  Fam209  family with sequence similarity 209 member B  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2019-04-16 Fam209  family with sequence similarity 209 member B  Fam209a  family with sequence similarity 209, member A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-12-06 Fam209a  family with sequence similarity 209, member A  RGD1307805  hypothetical LOC296411  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1307805  hypothetical LOC296411   RGD1307805_predicted  hypothetical LOC296411 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-20 RGD1307805_predicted  hypothetical LOC296411 (predicted)  LOC296411_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC296411_predicted  hypothetical LOC296411 (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL