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


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
extracellular space  (IBA,IDA,ISO)

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: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  


Genomics

Comparative Map Data
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

Variants

.
Variants in Tafa3
768 total Variants
miRNA Target Status

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.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
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
26884436Zlq3_mzygomatic length QTL 3, 10 week (mouse)33265060142405761Mouse
11533920Mvb3_mmodifier of vibrator 3 (mouse)398635284132635383Mouse
26884427Cvht4_mcranial vault height 4, 10 week (mouse)316054164109707316Mouse
10766455Sle22_msystematic lupus erythematosus susceptibility 22 (mouse)390376936124377072Mouse
14747001Mancz4_mmandible centroid size 4 (mouse)390378017124378017Mouse
26884419Bzwq6_mbi-zygomatic width QTL 6, 10 week (mouse)3100607316137205761Mouse
1301705Sles3_msystemic lupus erythmatosus suppressor 3 (mouse)Not determined337174862143353183Mouse
13207570Tcq12_mtotal cholesterol QTL 12 (mouse)316504164130163649Mouse
1357583Sle18_msystematic lupus erythematosus susceptibility 18 (mouse)Not determined387208904125316236Mouse
12792984Modn1_mmodifier of Dstn neovascularization 1 (mouse)398635284132635383Mouse
26884422Cvht7_mcranial vault height 7, 16 week (mouse)328954149118893649Mouse
4142178Ctrq2_mC. trachomatis resistance QTL 2 (mouse)Not determined389139967137453008Mouse
1300595Tmevd2_mTheiler's murine encephalomyelitis virus induced demyelinating disease susceptibility 2 (mouse)Not determined375463302109463549Mouse
1300982Lmr11_mleishmaniasis resistance 11 (mouse)Not determined372139967106140094Mouse
1301947Pcfm3_mperiosteal circumference and femur length 3 (mouse)Not determined381084652115084797Mouse
10043955Wt10q4_mbody weight, 10 weeks, QTL 4 (mouse)Not determined398624041132624197Mouse
4142099Cq3_mcholesterol QTL 3 (mouse)Not determined384888918118889067Mouse
11039512Ltpr3b_mLeishmania tropica response 3b (mouse)383463991117464137Mouse
1302114Tbs1_mtuberculosis severity 1 (mouse)Not determined398924105132924250Mouse
27226733Tibmd6_mtibia midshaft diameter 6, 16 week (mouse)3101307316149805637Mouse
27226732Tibmd3_mtibia midshaft diameter 3, 10 week (mouse)396607316147805636Mouse
1301349Pgia26_mproteoglycan induced arthritis 26 (mouse)Not determined392251533126251650Mouse
1302052Etohcta4_methanol conditioned taste aversion 4 (mouse)Not determined391000105125008748Mouse
1302056Orgwq4_morgan weight QTL 4 (mouse)Not determined330067588147304689Mouse
11039507Ltpr3g_mLeishmania tropica response 3g (mouse)383463991117464137Mouse
11039508Ltpr3f_mLeishmania tropica response 3f (mouse)383463991117464137Mouse
11039509Ltpr3e_mLeishmania tropica response 3e (mouse)383463991117464137Mouse
11039510Ltpr3d_mLeishmania tropica response 3d (mouse)383463991117464137Mouse
1301805Mors2_mmodifier of obesity related sterility 2 (mouse)Not determined3103482659137482783Mouse
13208566Bmiq5_mbody mass index QTL 5 (mouse)340954435115793649Mouse
11039511Ltpr3c_mLeishmania tropica response 3c (mouse)383463991117464137Mouse


Expression

RNA-SEQ Expression


Sequence


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:
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

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

Promoters
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

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3046463 AgrOrtholog
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


Nomenclature History
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