Plxna4 (plexin A4) - Rat Genome Database

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Gene: Plxna4 (plexin A4) Mus musculus
Analyze
Symbol: Plxna4
Name: plexin A4
RGD ID: 1317637
MGI Page MGI
Description: Enables semaphorin receptor activity. Involved in axon guidance; cranial nerve structural organization; and embryonic heart tube development. Acts upstream of or within several processes, including nervous system development; regulation of axon extension involved in axon guidance; and regulation of negative chemotaxis. Predicted to be located in plasma membrane. Predicted to be part of semaphorin receptor complex. Predicted to be integral component of plasma membrane. Is expressed in several structures, including alimentary system; nervous system; and sensory organ. Orthologous to human PLXNA4 (plexin A4).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 9330117B14; KIAA1550; mKIAA1550; Pl; plexin-A4; Plxa4
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
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
GRCm39632,121,478 - 32,565,127 (-)NCBIGRCm39mm39
GRCm39 Ensembl632,121,203 - 32,565,127 (-)Ensembl
GRCm38632,144,543 - 32,588,192 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl632,144,268 - 32,588,192 (-)EnsemblGRCm38mm10GRCm38
MGSCv37632,094,543 - 32,538,192 (-)NCBIGRCm37mm9NCBIm37
MGSCv36632,080,285 - 32,518,350 (-)NCBImm8
Celera632,131,794 - 32,576,227 (-)NCBICelera
Cytogenetic Map6A3.3NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

References

Additional References at PubMed
PMID:8889548   PMID:10349636   PMID:10922068   PMID:11042159   PMID:11076861   PMID:11217851   PMID:11306810   PMID:12477932   PMID:12591607   PMID:15661641   PMID:15721238   PMID:15814794  
PMID:15869472   PMID:16141072   PMID:16141073   PMID:16284245   PMID:16602821   PMID:17109816   PMID:17145500   PMID:17296555   PMID:17356169   PMID:17626059   PMID:17951031   PMID:18209113  
PMID:18262512   PMID:18464795   PMID:18489001   PMID:18523013   PMID:18617019   PMID:18625214   PMID:18727829   PMID:18786357   PMID:18804103   PMID:19020035   PMID:19063725   PMID:19243017  
PMID:19655386   PMID:20010807   PMID:20159958   PMID:20445064   PMID:20484647   PMID:20606624   PMID:21089322   PMID:21098092   PMID:21267068   PMID:21270798   PMID:21525298   PMID:21677750  
PMID:21862448   PMID:21873635   PMID:22368082   PMID:22424930   PMID:22516460   PMID:22593055   PMID:22632726   PMID:22723296   PMID:22777942   PMID:23431145   PMID:23991118   PMID:24179230  
PMID:24619647   PMID:24952961   PMID:25552398   PMID:25631876   PMID:25839327   PMID:25959730   PMID:26536270   PMID:26633812   PMID:26945060   PMID:27378688   PMID:27397516   PMID:27791111  
PMID:28172500   PMID:28407732   PMID:28438183   PMID:28512739   PMID:28637841   PMID:28751609   PMID:28893946   PMID:29209830   PMID:29445148   PMID:30628891   PMID:30635555   PMID:30735130  
PMID:31690636   PMID:31995756   PMID:32325033   PMID:32499377   PMID:33503438   PMID:34039996   PMID:34321999  


Genomics

Comparative Map Data
Plxna4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39632,121,478 - 32,565,127 (-)NCBIGRCm39mm39
GRCm39 Ensembl632,121,203 - 32,565,127 (-)Ensembl
GRCm38632,144,543 - 32,588,192 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl632,144,268 - 32,588,192 (-)EnsemblGRCm38mm10GRCm38
MGSCv37632,094,543 - 32,538,192 (-)NCBIGRCm37mm9NCBIm37
MGSCv36632,080,285 - 32,518,350 (-)NCBImm8
Celera632,131,794 - 32,576,227 (-)NCBICelera
Cytogenetic Map6A3.3NCBI
PLXNA4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387132,123,340 - 132,648,688 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl7132,123,340 - 132,648,688 (-)EnsemblGRCh38hg38GRCh38
GRCh377131,808,099 - 132,333,447 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367131,458,631 - 131,983,987 (-)NCBINCBI36hg18NCBI36
Build 347131,269,944 - 131,370,450NCBI
Celera7126,560,410 - 127,085,672 (-)NCBI
Cytogenetic Map7q32.3NCBI
HuRef7126,124,398 - 126,649,403 (-)NCBIHuRef
CHM1_17131,743,547 - 132,268,963 (-)NCBICHM1_1
T2T-CHM13v2.07133,444,537 - 133,970,190 (-)NCBI
Plxna4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2460,720,246 - 61,162,206 (-)NCBImRatBN7.2
mRatBN7.2 Ensembl460,720,255 - 61,162,206 (-)Ensembl
Rnor_6.0459,439,489 - 59,883,637 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl459,445,767 - 59,809,321 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0459,185,891 - 59,625,441 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4459,254,319 - 59,692,187 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1459,530,019 - 59,968,678 (-)NCBI
Celera455,807,378 - 56,248,398 (-)NCBICelera
Cytogenetic Map4q22NCBI
Plxna4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541035,281,648 - 35,713,453 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541035,281,042 - 35,714,094 (+)NCBIChiLan1.0ChiLan1.0
PLXNA4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.17136,607,795 - 137,059,706 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7136,643,657 - 136,992,405 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v07124,097,028 - 124,621,504 (-)NCBIMhudiblu_PPA_v0panPan3
PLXNA4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1144,683,569 - 5,110,113 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl144,680,882 - 5,103,050 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha144,344,388 - 4,770,614 (+)NCBI
ROS_Cfam_1.0144,419,335 - 4,847,251 (+)NCBI
ROS_Cfam_1.0 Ensembl144,421,153 - 4,842,617 (+)Ensembl
UMICH_Zoey_3.1144,622,751 - 5,050,482 (+)NCBI
UNSW_CanFamBas_1.0144,368,126 - 4,795,816 (+)NCBI
UU_Cfam_GSD_1.0144,510,104 - 4,938,016 (+)NCBI
Plxna4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511822,892,653 - 23,318,229 (+)NCBI
SpeTri2.0NW_0049365793,025,251 - 3,449,347 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLXNA4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1816,052,663 - 16,973,768 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11816,475,250 - 16,977,821 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PLXNA4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121100,779,307 - 101,223,184 (-)NCBIChlSab1.1chlSab2
ChlSab1.1 Ensembl21100,781,779 - 101,158,801 (-)EnsemblChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660422,152,838 - 2,604,602 (+)NCBIVero_WHO_p1.0
Plxna4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247833,658,835 - 4,285,638 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046247833,831,320 - 4,292,594 (+)NCBIHetGla_female_1.0hetGla2

Position Markers
Plxna4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
cM Map6 UniSTS
D6Mit141  
Mouse AssemblyChrPosition (strand)SourceJBrowse
MGSCv37632,519,059 - 32,519,144UniSTSGRCm37
Celera632,557,450 - 32,557,536UniSTS
cM Map66.6UniSTS
Whitehead Genetic66.6UniSTS
D6Mit141.1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38632,569,159 - 32,569,306UniSTSGRCm38
MGSCv37632,519,159 - 32,519,306UniSTSGRCm37
Celera632,557,551 - 32,557,698UniSTS
Cytogenetic Map6B1UniSTS
cM Map66.6UniSTS
cM Map6 UniSTS
Whitehead Genetic66.6UniSTS
D6Mit82  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38632,507,702 - 32,507,837UniSTSGRCm38
MGSCv37632,457,702 - 32,457,837UniSTSGRCm37
Celera632,496,124 - 32,496,259UniSTS
Cytogenetic Map6B1UniSTS
cM Map67.3UniSTS
Whitehead Genetic65.5UniSTS
Whitehead/MRC_RH6245.09UniSTS
Whitehead_YAC6 UniSTS
UniSTS:10408  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38632,144,340 - 32,144,443UniSTSGRCm38
MGSCv37632,094,340 - 32,094,443UniSTSGRCm37
Celera632,131,593 - 32,131,696UniSTS
Cytogenetic Map5FUniSTS
Cytogenetic Map6B1UniSTS
MARC_9713-9714:996688545:1  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm381194,799,813 - 194,800,579UniSTSGRCm38
MGSCv371196,626,007 - 196,626,773UniSTSGRCm37
Celera1201,699,709 - 201,700,475UniSTS
Cytogenetic Map1H6UniSTS
Cytogenetic Map6B1UniSTS
Plxna4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6B1UniSTS
cM Map6 UniSTS
Plxna4  
Mouse AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map6B1UniSTS


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1301131Chol2_mcholesterol 2 (mouse)Not determined6132144495Mouse
5491191Mobq2_mmultigenic obesity QTL 2 (mouse)Not determined6132144495Mouse
1302024Skull7_mskull morphology 7 (mouse)Not determined6132144495Mouse
15039372Nmrs22_mNAFLD-associated magnetic resonance shift 22 (mouse)6147633435476334Mouse
25440480Moaq2_mmodifier of alien QTL 2 (mouse)63050001117476961Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139076998Mouse
1300731Smdq3_msegregation of mitochondrial DNA QTL 3 (mouse)Not determined6424920638249325Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487403016Mouse
11353840Bmiq2_mbody mass index QTL 2 (mouse)6450382345291115Mouse
1357520Axtq2_manxiety QTL 2 (mouse)Not determined6450382348703611Mouse
1357481Aaj2_manxiety in A/J 2 (mouse)Not determined6450382348703611Mouse
11353841Bmiq3_mbody mass index QTL 3 (mouse)6450382348703611Mouse
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396633110Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396633110Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396633110Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396633110Mouse
26884441Sklq3_mskull length QTL 3, 5 week (mouse)6760000080576983Mouse
1302051Sluc7_msusceptibility to lung cancer 7 (mouse)Not determined6929707443297168Mouse
10043869Cia6a_mcollagen induced arthritis QTL 6a (mouse)Not determined61211797146118069Mouse
4141749Obrq2_mobesity resistance QTL 2 (mouse)Not determined1275122146751333Mouse
1301998Bts2_mbladder tumor susceptibility 2 (mouse)Not determined61275122146751333Mouse
27226726Tibmd7_mtibia midshaft diameter 7, 16 week (mouse)61769999953476985Mouse
1301850Fglu_mfasting glucose (mouse)Not determined61771159851711719Mouse
1301724Pcd4ts1_mp-glycoprotein positive CD4 T cell subset 1 (mouse)Not determined61771159851711719Mouse
4140989Spqq2_msperm quality QTL 2 (mouse)Not determined1771159851711719Mouse
1357442Dbts1_mdiabetes 1 (mouse)Not determined61823414773364675Mouse
12904940Edlmmq5_mextensor digitorum longus muscle mass QTL 5 (mouse)61961634653616346Mouse
12904943Tammq4_mtibialis anterior muscle mass QTL 4 (mouse)61961634653616346Mouse
12904952Gmmq4_mgastrocnemius muscle mass QTL 4 (mouse)61961634653616346Mouse
10412213Sxbq2_mSGC/Knj cross B6 QTL 2 (mouse)Not determined61991268571299759Mouse
10412107Desp4_mdespair 4 (mouse)Not determined62004983054049830Mouse
14700690Ccs6_mcolon cancer susceptibility 6 (mouse)62377693457776934Mouse
13208564Bmiq7_mbody mass index QTL 7 (mouse)62499999979976983Mouse
4141988Obrq3_mobesity resistance QTL 3 (mouse)Not determined2829099362291115Mouse
11352717Obrq2a_mobesity resistance QTL 2a (mouse)63169434134847895Mouse
4141454Obrq4_mobesity resistance QTL 4 (mouse)Not determined3170349965703611Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1624
Count of miRNA genes:752
Interacting mature miRNAs:935
Transcripts:ENSMUST00000115096
Prediction methods:Miranda
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000115096   ⟹   ENSMUSP00000110748
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl632,121,203 - 32,565,127 (-)Ensembl
GRCm38.p6 Ensembl632,144,268 - 32,588,192 (-)Ensembl
RefSeq Acc Id: ENSMUST00000200732
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl632,200,708 - 32,202,134 (-)Ensembl
GRCm38.p6 Ensembl632,223,773 - 32,225,199 (-)Ensembl
RefSeq Acc Id: NM_175750   ⟹   NP_786926
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39632,121,478 - 32,565,127 (-)NCBI
GRCm38632,144,543 - 32,588,192 (-)ENTREZGENE
MGSCv37632,094,543 - 32,538,192 (-)RGD
Celera632,131,794 - 32,576,227 (-)RGD
cM Map6 ENTREZGENE
Sequence:
Reference Sequences
RefSeq Acc Id: NP_786926   ⟸   NM_175750
- Peptide Label: precursor
- UniProtKB: Q80UG2 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000110748   ⟸   ENSMUST00000115096
Protein Domains
IPT/TIG   PSI   Sema

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q80UG2-F1-model_v2 AlphaFold Q80UG2 1-1893 view protein structure

Promoters
RGD ID:6839761
Promoter ID:MM_KWN:45495
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Brain,   Lung
Transcripts:NM_175750
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36632,537,761 - 32,538,502 (-)MPROMDB
RGD ID:6889272
Promoter ID:EPDNEW_M8087
Type:initiation region
Name:Plxna4_1
Description:Mus musculus plexin A4 , 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
GRCm38632,588,203 - 32,588,263EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2179061 AgrOrtholog
Ensembl Genes ENSMUSG00000029765 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000110748 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000115096 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.506.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.130.10.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_E-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IPT_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Plexin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Plexin_cytoplasmic_RasGAP_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Plexin_repeat UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PSI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Rho_GTPase_activation_prot UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Semap_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Semap_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIG1_plexin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIG2_plexin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  WD40/YVTN_repeat-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:243743 UniProtKB/Swiss-Prot
MGD MGI:2179061 ENTREZGENE
NCBI Gene 243743 ENTREZGENE
PANTHER PTHR22625 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Plexin_cytopl UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PSI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sema UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIG_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  TIG_plexin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Plxna4 PhenoGen
PROSITE SEMA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART IPT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PSI UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Sema UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF101912 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF48350 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF81296 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt B9EJ29_MOUSE UniProtKB/TrEMBL
  PLXA4_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary E9QN64 UniProtKB/Swiss-Prot
  Q5DTW8 UniProtKB/Swiss-Prot
  Q8BKK9 UniProtKB/Swiss-Prot