Fam229a (family with sequence similarity 229, member A) - Rat Genome Database

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Gene: Fam229a (family with sequence similarity 229, member A) Rattus norvegicus
Analyze
Symbol: Fam229a
Name: family with sequence similarity 229, member A
RGD ID: 1564163
Description: Orthologous to human FAM229A (family with sequence similarity 229 member A); INTERACTS WITH 3-chloropropane-1,2-diol; bisphenol A; endosulfan.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: hypothetical protein LOC500554; LOC500554; RGD1564163; similar to RIKEN cDNA 1700025K23; uncharacterized protein LOC500554
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85147,114,054 - 147,115,043 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5147,113,997 - 147,114,785 (+)EnsemblGRCr8
mRatBN7.25141,829,716 - 141,830,705 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5141,828,664 - 141,830,705 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx5144,531,059 - 144,532,031 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05146,300,882 - 146,301,854 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05146,297,409 - 146,298,398 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05147,692,391 - 147,693,380 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5147,692,391 - 147,693,380 (+)Ensemblrn6Rnor6.0
Rnor_5.05151,413,457 - 151,414,446 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45148,647,727 - 148,648,716 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5140,305,249 - 140,306,238 (+)NCBICelera
Cytogenetic Map5q36NCBI
JBrowse:




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

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Fam229a
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85147,114,054 - 147,115,043 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl5147,113,997 - 147,114,785 (+)EnsemblGRCr8
mRatBN7.25141,829,716 - 141,830,705 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5141,828,664 - 141,830,705 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx5144,531,059 - 144,532,031 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05146,300,882 - 146,301,854 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05146,297,409 - 146,298,398 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.05147,692,391 - 147,693,380 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5147,692,391 - 147,693,380 (+)Ensemblrn6Rnor6.0
Rnor_5.05151,413,457 - 151,414,446 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.45148,647,727 - 148,648,716 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera5140,305,249 - 140,306,238 (+)NCBICelera
Cytogenetic Map5q36NCBI
FAM229A
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38132,361,270 - 32,362,485 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl132,361,270 - 32,364,278 (-)Ensemblhg38GRCh38
GRCh37132,826,871 - 32,828,086 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36132,597,776 - 32,600,431 (-)NCBIBuild 36Build 36hg18NCBI36
Celera131,097,347 - 31,098,320 (-)NCBICelera
Cytogenetic Map1p35.1NCBI
HuRef130,942,251 - 30,943,224 (-)NCBIHuRef
CHM1_1132,942,319 - 32,943,292 (-)NCBICHM1_1
T2T-CHM13v2.0132,219,185 - 32,220,400 (-)NCBIT2T-CHM13v2.0
Fam229a
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm394129,384,983 - 129,385,749 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl4129,384,983 - 129,385,749 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm384129,491,190 - 129,491,956 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl4129,491,190 - 129,491,956 (+)Ensemblmm10GRCm38
MGSCv374129,168,434 - 129,169,200 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv364128,993,503 - 128,994,509 (+)NCBIMGSCv36mm8
Celera4127,832,331 - 127,833,097 (+)NCBICelera
Cytogenetic Map4D2.2NCBI
cM Map463.26NCBI
FAM229A
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21194,464,722 - 194,465,645 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11193,586,165 - 193,591,626 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0131,646,769 - 31,648,924 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1132,652,878 - 32,653,593 (-)NCBIPanPan1.1PanPan1.1panPan2
FAM229A
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1268,876,345 - 68,877,498 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl268,874,679 - 68,877,498 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha265,456,119 - 65,458,552 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0269,441,836 - 69,444,270 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl269,443,114 - 69,444,270 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1266,278,787 - 66,281,219 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0267,275,135 - 67,276,743 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0268,272,945 - 68,275,415 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Fam229a
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505849,548,182 - 49,549,136 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647415,372,964 - 15,373,976 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_00493647415,372,964 - 15,373,976 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FAM229A
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1688,808,634 - 88,813,694 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2682,643,517 - 82,645,264 (+)NCBISscrofa10.2Sscrofa10.2susScr3
FAM229A
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.120100,501,348 - 100,502,313 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl20100,501,500 - 100,502,153 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603316,183,203 - 16,185,589 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fam229a
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476415,571,905 - 15,572,528 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_00462476415,571,768 - 15,572,782 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Fam229a
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1128,661,399 - 28,663,371 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Fam229a
8 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:177
Count of miRNA genes:120
Interacting mature miRNAs:133
Transcripts:ENSRNOT00000064855
Prediction methods:Microtar, 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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1331796Thshl2Thyroid stimulating hormone level QTL 22.3blood thyroid-stimulating hormone amount (VT:0005119)serum thyroid stimulating hormone level (CMO:0001248)5102105698152749382Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5130249266172190305Rat
1549845Scl44Serum cholesterol level QTL 446blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)544924861153890773Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5116702075161702075Rat
1354583Despr3Despair related QTL34.980.0002locomotor behavior trait (VT:0001392)amount of time spent in voluntary immobility (CMO:0001043)5132930505172190305Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5141212838172190305Rat
61452Ciaa5CIA Autoantibody QTL 53.5blood autoantibody amount (VT:0003725)calculated serum anti-rat type 2 collagen autoantibody titer (CMO:0001281)599905133172190305Rat
70156Niddm30Non-insulin dependent diabetes mellitus QTL 303.98blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)5134369218156289444Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5133789363172190305Rat
1331803Rf32Renal function QTL 322.798kidney blood vessel physiology trait (VT:0100012)absolute change in renal vascular resistance (CMO:0001900)5134369199172190305Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)565089051166764498Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5136631198172190305Rat
7207486Bss109Bone structure and strength QTL 109femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)5112142946157142946Rat
7207481Bss106Bone structure and strength QTL 1067.9femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5112142946157142946Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5110770739155770739Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5133081618172190305Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)551657967166600247Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5138002522170842766Rat
1549838Bss4Bone structure and strength QTL 49.2femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)5112142946157142946Rat
1581505Rf54Renal function QTL 54kidney physiology trait (VT:0002136)kidney 20-HETE level (CMO:0001854)5133270647172190305Rat
2317753Glom24Glomerulus QTL 243.1kidney glomerulus integrity trait (VT:0010546)kidney sclerotic glomeruli count to total glomeruli count ratio (CMO:0001269)5141764300172190305Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5133789363172190305Rat
1581510Cm54Cardiac mass QTL 543.40.05heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)5125969677172190305Rat
1576312Emca8Estrogen-induced mammary cancer QTL 84.1mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)555124766172190305Rat
2317056Wbc3White blood cell count QTL 32.510.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)5111236572156236572Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5131708216172190305Rat
1598847Cm62Cardiac mass QTL 623.4heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5114131300159131300Rat
2293642Bss37Bone structure and strength QTL 374.640.0001femur strength trait (VT:0010010)femur ultimate force (CMO:0001675)5125969677156302135Rat
7207488Bss110Bone structure and strength QTL 18.4femur strength trait (VT:0010010)femur stiffness (CMO:0001674)5112142946157142946Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5116702075161702075Rat
7207491Bss112Bone structure and strength QTL 1127femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)5112142946157142946Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5116702075161702075Rat
1354598Srn6Serum renin concentration QTL 63.8blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)574335621156302135Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5116702075161702075Rat
1298089Scl14Serum cholesterol level QTL 145.80.0004blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)5114131300159131300Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5133081618172190305Rat
1358187Emca1Estrogen-induced mammary cancer QTL 14.4mammary gland integrity trait (VT:0010552)post-insult time to mammary tumor formation (CMO:0000345)5104262817153890625Rat

Markers in Region
UniSTS:493030  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.25141,829,715 - 141,830,382 (+)MAPPERmRatBN7.2
Rnor_6.05147,692,391 - 147,693,057NCBIRnor6.0
Rnor_5.05151,413,457 - 151,414,123UniSTSRnor5.0
RGSC_v3.45148,647,727 - 148,648,393UniSTSRGSC3.4
Celera5140,305,249 - 140,305,915UniSTS
Cytogenetic Map5q36UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 11 62 147 87 86 55 90 55 6 340 181 7 128 80 86 31 9 9

Sequence


Ensembl Acc Id: ENSRNOT00000064855   ⟹   ENSRNOP00000059148
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl5147,113,997 - 147,114,785 (+)Ensembl
mRatBN7.2 Ensembl5141,828,664 - 141,830,705 (+)Ensembl
Rnor_6.0 Ensembl5147,692,391 - 147,693,380 (+)Ensembl
RefSeq Acc Id: NM_001109266   ⟹   NP_001102736
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85147,114,054 - 147,115,043 (+)NCBI
mRatBN7.25141,829,716 - 141,830,705 (+)NCBI
Rnor_6.05147,692,391 - 147,693,380 (+)NCBI
Rnor_5.05151,413,457 - 151,414,446 (+)NCBI
RGSC_v3.45148,647,727 - 148,648,716 (+)RGD
Celera5140,305,249 - 140,306,238 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001102736 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL80542 (Get FASTA)   NCBI Sequence Viewer  
  EDL80543 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000059148
  ENSRNOP00000059148.1
RefSeq Acc Id: NP_001102736   ⟸   NM_001109266
- UniProtKB: D4A5X2 (UniProtKB/TrEMBL),   A6ISJ1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000059148   ⟸   ENSRNOT00000064855

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A5X2-F1-model_v2 AlphaFold D4A5X2 1-128 view protein structure

Transcriptome

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

Promoters
RGD ID:13694065
Promoter ID:EPDNEW_R4590
Type:initiation region
Name:Fam229a_1
Description:family with sequence similarity 229, 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_6.05147,692,432 - 147,692,492EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564163 AgrOrtholog
BioCyc Gene G2FUF-39799 BioCyc
Ensembl Genes ENSRNOG00000042787 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000064855 ENTREZGENE
  ENSRNOT00000064855.3 UniProtKB/TrEMBL
InterPro FAM229 UniProtKB/TrEMBL
KEGG Report rno:500554 UniProtKB/TrEMBL
NCBI Gene 500554 ENTREZGENE
PANTHER PROTEIN FAM229A UniProtKB/TrEMBL
  PTHR35355 UniProtKB/TrEMBL
Pfam UPF0731 UniProtKB/TrEMBL
PhenoGen Fam229a PhenoGen
RatGTEx ENSRNOG00000042787 RatGTEx
UniProt A6ISJ1 ENTREZGENE, UniProtKB/TrEMBL
  D4A5X2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-01-02 Fam229a  family with sequence similarity 229, member A  RGD1564163  similar to RIKEN cDNA 1700025K23  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564163  similar to RIKEN cDNA 1700025K23   RGD1564163_predicted  similar to RIKEN cDNA 1700025K23 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564163_predicted  similar to RIKEN cDNA 1700025K23 (predicted)  LOC500554  similar to RIKEN cDNA 1700025K23  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500554  similar to RIKEN cDNA 1700025K23      Symbol and Name status set to provisional 70820 PROVISIONAL