Tafa3 (TAFA chemokine like family member 3) - Rat Genome Database

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Gene: Tafa3 (TAFA chemokine like family member 3) Mus musculus
Analyze
Symbol: Tafa3
Name: TAFA chemokine like family member 3
RGD ID: 1617223
MGI Page MGI
Description: Predicted to enable receptor ligand activity. Acts upstream of or within negative regulation of microglial cell activation and positive regulation of microglial cell activation. Located in extracellular space. Used to study autism spectrum disorder. Orthologous to human TAFA3 (TAFA chemokine like family member 3).
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: 7530404M11Rik; chemokine-like protein TAFA-3; Fam19; Fam19a3; family with sequence similarity 19, member A3; Sa; Sam3; Taf; Tafa; Tafa-3
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393104,674,721 - 104,686,854 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3104,674,722 - 104,689,156 (-)EnsemblGRCm39 Ensembl
GRCm383104,767,405 - 104,779,542 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3104,767,406 - 104,781,840 (-)EnsemblGRCm38mm10GRCm38
MGSCv373104,570,324 - 104,580,465 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363104,895,462 - 104,905,603 (-)NCBIMGSCv36mm8
Celera3106,961,764 - 106,972,902 (-)NCBICelera
Cytogenetic Map3F2.2NCBI
cM Map345.84NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Tafa3Mouseamenorrhea  ISOTAFA3 (Homo sapiens)8554872ClinVar Annotator: match by term: Primary amenorrheaClinVarPMID:21681106
Tafa3Mousehereditary spastic paraplegia 47  ISOTAFA3 (Homo sapiens)8554872ClinVar Annotator: match by term: Hereditary spastic paraplegia 47ClinVarPMID:22290197 more ...
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Tafa3Mouseautism spectrum disorder  IAGP 13592920 MouseDO 

1 to 20 of 23 rows

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Tafa3Mouse1,2-dimethylhydrazine decreases expressionEXP 64804641 and 2-Dimethylhydrazine results in decreased expression of FAM19A3 mRNACTDPMID:22206623
Tafa3Mouse2,3,7,8-tetrachlorodibenzodioxine decreases expressionISOTafa3 (Rattus norvegicus)6480464Tetrachlorodibenzodioxin results in decreased expression of TAFA3 mRNACTDPMID:34747641
Tafa3Mouse4,4'-sulfonyldiphenol decreases methylationEXP 6480464bisphenol S results in decreased methylation of TAFA3 promoterCTDPMID:33297965
Tafa3Mouse4,4'-sulfonyldiphenol affects methylationEXP 6480464bisphenol S affects the methylation of FAM19A3 geneCTDPMID:31683443
Tafa3Mouseacrylamide decreases expressionISOTafa3 (Rattus norvegicus)6480464Acrylamide results in decreased expression of TAFA3 mRNACTDPMID:28959563
Tafa3Mouseaflatoxin B1 decreases methylationISOTAFA3 (Homo sapiens)6480464Aflatoxin B1 results in decreased methylation of TAFA3 geneCTDPMID:27153756
Tafa3Mouseamphetamine decreases expressionISOTafa3 (Rattus norvegicus)6480464Amphetamine results in decreased expression of TAFA3 mRNACTDPMID:30779732
Tafa3Mousebenzo[a]pyrene decreases expressionISOTAFA3 (Homo sapiens)6480464Benzo(a)pyrene results in decreased expression of TAFA3 mRNACTDPMID:20064835
Tafa3Mousebenzo[a]pyrene increases methylationISOTAFA3 (Homo sapiens)6480464Benzo(a)pyrene results in increased methylation of FAM19A3 5' UTR and Benzo(a)pyrene results in increased methylation of FAM19A3 promoterCTDPMID:27901495
Tafa3Mousebisphenol A increases methylationEXP 6480464bisphenol A results in increased methylation of TAFA3 promoterCTDPMID:27312807
Tafa3Mousebisphenol A decreases expressionISOTafa3 (Rattus norvegicus)6480464bisphenol A results in decreased expression of TAFA3 mRNACTDPMID:25181051
Tafa3MouseDDE decreases expressionISOTAFA3 (Homo sapiens)6480464Dichlorodiphenyl Dichloroethylene results in decreased expression of TAFA3 mRNACTDPMID:38568856
Tafa3Mouseokadaic acid increases expressionISOTAFA3 (Homo sapiens)6480464Okadaic Acid results in increased expression of TAFA3 mRNACTDPMID:38832940
Tafa3Mouseozone decreases expressionEXP 6480464Ozone results in decreased expression of FAM19A3 mRNACTDPMID:31626304
Tafa3Mousepermethrin decreases expressionISOTAFA3 (Homo sapiens)6480464Permethrin results in decreased expression of TAFA3 mRNACTDPMID:37047231
Tafa3Mousesuccimer multiple interactionsEXP 6480464[Succimer co-treated with Magnetite Nanoparticles] results in increased expression of TAFA3 mRNACTDPMID:26378955
Tafa3Mousetitanium dioxide decreases expressionEXP 6480464titanium dioxide results in decreased expression of FAM19A3 mRNACTDPMID:29264374
Tafa3Mousetitanium dioxide decreases methylationEXP 6480464titanium dioxide results in decreased methylation of FAM19A3 enhancerCTDPMID:35295148
Tafa3Mousetitanium dioxide increases expressionEXP 6480464titanium dioxide results in increased expression of TAFA3 mRNACTDPMID:35295148
Tafa3Mousetriclosan increases expressionISOTAFA3 (Homo sapiens)6480464Triclosan results in increased expression of TAFA3 mRNACTDPMID:30510588

1 to 20 of 23 rows

Biological Process

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Tafa3Mousenegative regulation of microglial cell activation acts_upstream_of_or_withinIDA 2290270 PMID:25595455MGIPMID:25595455
Tafa3Mousenegative regulation of microglial cell activation involved_inIBAPANTHER:PTN001273110 and MGI:30464632290270 GO_CentralGO_REF:0000033
Tafa3Mousepositive regulation of microglial cell activation acts_upstream_of_or_withinIDA 2290270 PMID:25595455MGIPMID:25595455
Tafa3Mousepositive regulation of microglial cell activation involved_inIBAPANTHER:PTN001273110 and MGI:30464632290270 GO_CentralGO_REF:0000033

Cellular Component

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Tafa3Mouseextracellular space is_active_inIBAPANTHER:PTN000788783 more ...2290270 GO_CentralGO_REF:0000033
Tafa3Mouseextracellular space located_inIDA 2290270 PMID:22426341 and PMID:25595455MGIPMID:22426341 and PMID:25595455
Tafa3Mouseextracellular space located_inISOUniProtKB:Q7Z5A82290270 PMID:25595455MGIPMID:25595455

Molecular Function

  
Object Symbol
Species
Term
Qualifier
Evidence
With
Reference
Notes
Source
Original Reference(s)
Tafa3Mousereceptor ligand activity enablesIBAPANTHER:PTN000788783 more ...2290270 GO_CentralGO_REF:0000033


#
Reference Title
Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
PMID:8889548   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:15028294   PMID:15203217   PMID:16141072   PMID:16141073   PMID:21267068  
PMID:21677750   PMID:21873635   PMID:22426341   PMID:25595455   PMID:28199486   PMID:29184127   PMID:38355793  



Tafa3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm393104,674,721 - 104,686,854 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl3104,674,722 - 104,689,156 (-)EnsemblGRCm39 Ensembl
GRCm383104,767,405 - 104,779,542 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl3104,767,406 - 104,781,840 (-)EnsemblGRCm38mm10GRCm38
MGSCv373104,570,324 - 104,580,465 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv363104,895,462 - 104,905,603 (-)NCBIMGSCv36mm8
Celera3106,961,764 - 106,972,902 (-)NCBICelera
Cytogenetic Map3F2.2NCBI
cM Map345.84NCBI
TAFA3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381112,718,905 - 112,727,235 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1112,718,905 - 112,727,235 (+)EnsemblGRCh38hg38GRCh38
GRCh371113,261,527 - 113,269,857 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361113,064,712 - 113,071,380 (+)NCBINCBI36Build 36hg18NCBI36
Build 341112,975,230 - 112,981,896NCBI
Celera1111,493,881 - 111,500,551 (+)NCBICelera
Cytogenetic Map1p13.2NCBI
HuRef1111,121,580 - 111,128,252 (+)NCBIHuRef
CHM1_11113,378,391 - 113,385,045 (+)NCBICHM1_1
T2T-CHM13v2.01112,731,456 - 112,739,787 (+)NCBIT2T-CHM13v2.0
Tafa3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr82194,952,499 - 194,968,776 (-)NCBIGRCr8
mRatBN7.22192,264,153 - 192,280,356 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl2192,267,093 - 192,274,019 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.02207,249,000 - 207,258,962 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2207,252,196 - 207,255,824 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02226,668,631 - 226,678,501 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.42200,027,578 - 200,031,625 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera2184,731,037 - 184,740,999 (-)NCBICelera
Cytogenetic Map2q34NCBI
Tafa3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495543516,132,345 - 16,142,291 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495543516,132,345 - 16,142,291 (+)NCBIChiLan1.0ChiLan1.0
TAFA3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21114,305,846 - 114,317,473 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11113,453,986 - 113,465,602 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01115,371,555 - 115,378,880 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11124,973,677 - 124,980,938 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1124,973,677 - 124,980,938 (-)Ensemblpanpan1.1panPan2
TAFA3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ROS_Cfam_1.01764,023,062 - 64,027,390 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11762,757,746 - 62,762,057 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01762,815,770 - 62,820,074 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01763,575,510 - 63,579,823 (-)NCBIUU_Cfam_GSD_1.0
Tafa3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440505816,196,369 - 16,204,452 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366901,274,868 - 1,284,991 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366901,273,255 - 1,281,362 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TAFA3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl4107,707,620 - 107,719,317 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.14107,692,354 - 107,719,394 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.24117,763,074 - 117,792,104 (-)NCBISscrofa10.2Sscrofa10.2susScr3
TAFA3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12020,912,338 - 20,920,525 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2020,915,648 - 20,917,564 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603823,729,077 - 23,737,755 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tafa3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247728,502,094 - 8,505,469 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247728,495,509 - 8,505,585 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

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Variants in Tafa3
768 total Variants

Predicted Target Of
Summary Value
Count of predictions:1250
Count of miRNA genes:646
Interacting mature miRNAs:773
Transcripts:ENSMUST00000139783, ENSMUST00000162644
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.


1 to 10 of 41 rows
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD ID
Symbol
Name
LOD
P Value
Trait
Sub Trait
Chr
Start
Stop
Species
1301392Eae3_msusceptibility to experimental allergic encephalomyelitis 3 (mouse)Not determined379548730113548837Mouse
1301904Iba2_minduction of brown adipocytes 2 (mouse)Not determined382147043116147184Mouse
1300752Ap6q_malcohol preference 6 QTL (mouse)Not determined3100372912147045722Mouse
26884382Bzwq1_mbi-zygomatic width QTL 1, 5 week (mouse)352207421137205761Mouse
11041900Lmr11a_mleishmaniasis resistance 11a (mouse)383463991117464137Mouse
14746984Manh54_mmandible shape 54 (mouse)385289152119289152Mouse
12738440Twq3_mtestis weight QTL 3 (mouse)387228015121228015Mouse
25314313Syncl1_msynaptonemal complex length 1 (mouse)367907333128393649Mouse
1301272Cfsw1_mcystic fibrosis survival to weaning 1 (mouse)Not determined383882912117883044Mouse
11049572Lmr11c_mleishmaniasis resistance 11c (mouse)372139967106140094Mouse

1 to 10 of 41 rows






Ensembl Acc Id: ENSMUST00000139783   ⟹   ENSMUSP00000123514
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl3104,674,722 - 104,684,863 (-)Ensembl
GRCm38.p6 Ensembl3104,767,406 - 104,777,547 (-)Ensembl
Ensembl Acc Id: ENSMUST00000162644
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl3104,684,677 - 104,689,156 (-)Ensembl
GRCm38.p6 Ensembl3104,777,361 - 104,781,840 (-)Ensembl
RefSeq Acc Id: NM_183224   ⟹   NP_899047
RefSeq Status: REVIEWED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm393104,674,721 - 104,684,863 (-)NCBI
GRCm383104,767,405 - 104,777,547 (-)NCBI
MGSCv373104,570,324 - 104,580,465 (-)RGD
Celera3106,961,763 - 106,972,902 (-)ENTREZGENE
cM Map3 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_017319626   ⟹   XP_017175115
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm393104,674,721 - 104,686,854 (-)NCBI
GRCm383104,767,405 - 104,779,542 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036163139   ⟹   XP_036019032
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm393104,674,721 - 104,686,854 (-)NCBI
Sequence:
RefSeq Acc Id: XM_036163140   ⟹   XP_036019033
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm393104,674,721 - 104,686,854 (-)NCBI
Sequence:
1 to 10 of 10 rows
Protein RefSeqs NP_899047 (Get FASTA)   NCBI Sequence Viewer  
  XP_017175115 (Get FASTA)   NCBI Sequence Viewer  
  XP_036019032 (Get FASTA)   NCBI Sequence Viewer  
  XP_036019033 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAI18532 (Get FASTA)   NCBI Sequence Viewer  
  AAP92414 (Get FASTA)   NCBI Sequence Viewer  
  EDL07567 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000123514
  ENSMUSP00000123514.2
GenBank Protein Q7TPG6 (Get FASTA)   NCBI Sequence Viewer  
1 to 10 of 10 rows
RefSeq Acc Id: NP_899047   ⟸   NM_183224
- Peptide Label: precursor
- UniProtKB: Q147Z7 (UniProtKB/Swiss-Prot),   Q7TPG6 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017175115   ⟸   XM_017319626
- Peptide Label: isoform X1
- UniProtKB: Q147Z7 (UniProtKB/Swiss-Prot),   Q7TPG6 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000123514   ⟸   ENSMUST00000139783
RefSeq Acc Id: XP_036019033   ⟸   XM_036163140
- Peptide Label: isoform X1
- UniProtKB: Q7TPG6 (UniProtKB/Swiss-Prot),   Q147Z7 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_036019032   ⟸   XM_036163139
- Peptide Label: isoform X2

Name Modeler Protein Id AA Range Protein Structure
AF-Q7TPG6-F1-model_v2 AlphaFold Q7TPG6 1-132 view protein structure

RGD ID:6881902
Promoter ID:EPDNEW_M4402
Type:initiation region
Name:Fam19a3_1
Description:Mus musculus family with sequence similarity 19, member A3 ,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
GRCm383104,777,488 - 104,777,548EPDNEW


1 to 15 of 15 rows
Database
Acc Id
Source(s)
Ensembl Genes ENSMUSG00000055865 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000139783 ENTREZGENE
  ENSMUST00000139783.2 UniProtKB/Swiss-Prot
InterPro Chemokine-like_FAM19A2 UniProtKB/Swiss-Prot
  TAFA_chemokine-like UniProtKB/Swiss-Prot
KEGG Report mmu:329731 UniProtKB/Swiss-Prot
MGD MGI:3046463 ENTREZGENE
NCBI Gene 329731 ENTREZGENE
PANTHER CHEMOKINE-LIKE PROTEIN TAFA FAMILY MEMBER UniProtKB/Swiss-Prot
  CHEMOKINE-LIKE PROTEIN TAFA-3 UniProtKB/Swiss-Prot
Pfam TAFA UniProtKB/Swiss-Prot
PhenoGen Tafa3 PhenoGen
UniProt Q147Z7 ENTREZGENE
  Q7TPG6 ENTREZGENE, UniProtKB/Swiss-Prot
UniProt Secondary Q147Z7 UniProtKB/Swiss-Prot
1 to 15 of 15 rows


Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-02-26 Tafa3  TAFA chemokine like family member 3  Fam19a3  family with sequence similarity 19, member A3  Symbol and/or name change 5135510 APPROVED