Plekhf2 (pleckstrin homology domain containing, family F (with FYVE domain) member 2) - Rat Genome Database

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Gene: Plekhf2 (pleckstrin homology domain containing, family F (with FYVE domain) member 2) Mus musculus
Analyze
Symbol: Plekhf2
Name: pleckstrin homology domain containing, family F (with FYVE domain) member 2
RGD ID: 1323799
MGI Page MGI
Description: Predicted to enable phosphatidylinositol binding activity. Predicted to be involved in endosome organization and endosome to lysosome transport. Predicted to be located in transport vesicle. Predicted to be active in early endosome. Is expressed in central nervous system and genitourinary system. Orthologous to human PLEKHF2 (pleckstrin homology and FYVE domain containing 2).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 1110070J07Rik; AA673237; PH domain-containing family F member 2; pleckstrin homology domain-containing family F member 2; ZFYVE1; ZFYVE18
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: Gm7920  
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39410,988,662 - 11,007,619 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl410,988,662 - 11,007,927 (-)EnsemblGRCm39 Ensembl
GRCm38410,988,662 - 11,007,619 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl410,988,662 - 11,007,927 (-)EnsemblGRCm38mm10GRCm38
MGSCv37410,915,809 - 10,934,766 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36410,915,809 - 10,934,707 (-)NCBIMGSCv36mm8
Celera410,797,638 - 10,816,357 (-)NCBICelera
Cytogenetic Map4A1NCBI
cM Map44.86NCBI
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

Biological Process

Cellular Component

Molecular Function

Phenotype Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Mouse brain organization revealed through direct genome-scale TF expression analysis. Gray PA, etal., Science 2004 Dec 24;306(5705):2255-7.
2. Functional annotation of a full-length mouse cDNA collection. Kawai J, etal., Nature. 2001 Feb 8;409(6821):685-90.
3. MGDs mouse GO annotations MGD data from the GO Consortium
4. Analysis of the mouse transcriptome based on functional annotation of 60,770 full-length cDNAs. Okazaki Y, etal., Nature. 2002 Dec 5;420(6915):563-73.
5. 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:11356033   PMID:12477932   PMID:12904583   PMID:14610273   PMID:15489334   PMID:16141072   PMID:16141073   PMID:18287559  
PMID:18288467   PMID:18377642   PMID:18799693   PMID:21677750   PMID:21873635   PMID:24416124   PMID:27568557   PMID:30418981   PMID:32325033   PMID:34321999   PMID:38355793  


Genomics

Comparative Map Data
Plekhf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39410,988,662 - 11,007,619 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl410,988,662 - 11,007,927 (-)EnsemblGRCm39 Ensembl
GRCm38410,988,662 - 11,007,619 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl410,988,662 - 11,007,927 (-)EnsemblGRCm38mm10GRCm38
MGSCv37410,915,809 - 10,934,766 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36410,915,809 - 10,934,707 (-)NCBIMGSCv36mm8
Celera410,797,638 - 10,816,357 (-)NCBICelera
Cytogenetic Map4A1NCBI
cM Map44.86NCBI
PLEKHF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38895,133,785 - 95,156,685 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl895,115,642 - 95,156,698 (+)EnsemblGRCh38hg38GRCh38
GRCh37896,146,013 - 96,168,913 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36896,215,208 - 96,238,089 (+)NCBINCBI36Build 36hg18NCBI36
Build 34896,215,213 - 96,238,085NCBI
Celera892,330,955 - 92,353,916 (+)NCBICelera
Cytogenetic Map8q22.1NCBI
HuRef891,353,593 - 91,376,794 (+)NCBIHuRef
CHM1_1896,186,071 - 96,209,156 (+)NCBICHM1_1
T2T-CHM13v2.0896,259,034 - 96,281,932 (+)NCBIT2T-CHM13v2.0
Plekhf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8528,888,358 - 28,905,350 (-)NCBIGRCr8
mRatBN7.2524,091,077 - 24,106,758 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl524,090,688 - 24,106,601 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx526,279,691 - 26,295,002 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0527,872,690 - 27,888,001 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0527,673,644 - 27,688,951 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0524,240,241 - 24,255,922 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl524,240,242 - 24,255,606 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0528,967,291 - 28,982,656 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4524,835,705 - 24,851,069 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1524,835,704 - 24,851,062 (-)NCBI
Celera523,310,189 - 23,325,553 (-)NCBICelera
Cytogenetic Map5q13NCBI
Plekhf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541711,261,712 - 11,282,038 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541711,261,712 - 11,282,038 (+)NCBIChiLan1.0ChiLan1.0
PLEKHF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v27112,460,612 - 112,483,570 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1887,997,640 - 88,020,634 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0891,751,383 - 91,774,320 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1893,972,161 - 93,974,814 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl893,972,170 - 93,972,919 (+)Ensemblpanpan1.1panPan2
PLEKHF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12939,734,189 - 39,760,841 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2939,895,208 - 39,924,759 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02939,935,036 - 39,964,879 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2939,935,041 - 39,958,184 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12939,958,982 - 39,988,654 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02939,945,322 - 39,974,777 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02940,387,539 - 40,416,995 (-)NCBIUU_Cfam_GSD_1.0
Plekhf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530339,656,326 - 39,729,348 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365448,063,392 - 8,084,956 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365448,063,374 - 8,086,104 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PLEKHF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl441,511,342 - 41,535,012 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1441,512,109 - 41,534,932 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
PLEKHF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1890,099,946 - 90,123,573 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl890,120,929 - 90,121,678 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603950,708,609 - 50,732,255 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Plekhf2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247632,506,991 - 2,507,737 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247632,506,941 - 2,509,574 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Plekhf2
1254 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:716
Count of miRNA genes:440
Interacting mature miRNAs:519
Transcripts:ENSMUST00000054776, ENSMUST00000137891
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
10412079Sm1_msusceptibility to Schistosoma mansoni infection 1 (mouse)Not determined4122955614Mouse
11567249Elorr3_methanol induced loss of righting response 3 (mouse)43722677156268235Mouse
1301473Triglq1_mtriglyceride QTL 1 (mouse)Not determined4868324042683429Mouse
11049579Lmr9b_mleishmaniasis resistance 9b (mouse)4120657234Mouse
11049580Lmr9a_mleishmaniasis resistance 9 (mouse)4120657234Mouse
1301510Bbaa13_mB.burgdorferi-associated arthritis 13 (mouse)Not determined4126395649Mouse
1558992Ses8_msalmonella enteritidis susceptibility 8 (mouse)Not determined4868324042683429Mouse
1301274Lmr9_mleishmaniasis resistance 9 (mouse)Not determined4120657234Mouse
1302010Wta1_mweight adult 1 (mouse)Not determined4868324042683429Mouse
4141302Ssrq5_mstress response QTL 5 (mouse)Not determined868324042683430Mouse
1302125Lxw1_mlupus BXSB x NZW 1 (mouse)Not determined4868324042683429Mouse
10401905Sicd3_mseizure-induced cell death 3 (mouse)Not determined4939552543760862Mouse

Markers in Region
AA673237  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38410,988,892 - 10,989,063UniSTSGRCm38
MGSCv37410,916,039 - 10,916,210UniSTSGRCm37
Celera410,797,868 - 10,798,039UniSTS
Cytogenetic Map4A1UniSTS
Whitehead/MRC_RH4365.96UniSTS
RH124455  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38410,988,899 - 10,989,042UniSTSGRCm38
MGSCv37410,916,046 - 10,916,189UniSTSGRCm37
Celera410,797,875 - 10,798,018UniSTS
Cytogenetic Map4A1UniSTS
UniSTS:234866  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38410,990,192 - 10,990,542UniSTSGRCm38
MGSCv37410,917,339 - 10,917,689UniSTSGRCm37
Celera410,799,168 - 10,799,518UniSTS
Cytogenetic Map4A1UniSTS


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSMUST00000054776   ⟹   ENSMUSP00000054745
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl410,988,662 - 11,007,676 (-)Ensembl
GRCm38.p6 Ensembl410,988,662 - 11,007,676 (-)Ensembl
Ensembl Acc Id: ENSMUST00000137891   ⟹   ENSMUSP00000123520
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl410,990,749 - 11,007,927 (-)Ensembl
GRCm38.p6 Ensembl410,990,749 - 11,007,927 (-)Ensembl
RefSeq Acc Id: NM_175175   ⟹   NP_780384
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39410,988,662 - 11,007,619 (-)NCBI
GRCm38410,988,662 - 11,007,619 (-)ENTREZGENE
MGSCv37410,915,809 - 10,934,766 (-)RGD
Celera410,797,638 - 10,816,357 (-)RGD
cM Map4 ENTREZGENE
Sequence:
RefSeq Acc Id: NP_780384   ⟸   NM_175175
- UniProtKB: Q91WB4 (UniProtKB/Swiss-Prot)
- Sequence:
Ensembl Acc Id: ENSMUSP00000054745   ⟸   ENSMUST00000054776
Ensembl Acc Id: ENSMUSP00000123520   ⟸   ENSMUST00000137891
Protein Domains
FYVE-type   PH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q91WB4-F1-model_v2 AlphaFold Q91WB4 1-249 view protein structure

Promoters
RGD ID:6835867
Promoter ID:MM_KWN:36653
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:3T3L1_Day4,   3T3L1_Day6,   BoneMarrow_0Hour,   BoneMarrow_2Hour,   BoneMarrow_4Hour,   Brain,   ES_Cell,   Kidney,   Liver,   Lung,   MEF_B4,   MEF_B6,   Spleen
Transcripts:OTTMUST00000010221,   OTTMUST00000010222
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36410,934,551 - 10,935,152 (-)MPROMDB
RGD ID:6882802
Promoter ID:EPDNEW_M4852
Type:initiation region
Name:Plekhf2_1
Description:Mus musculus pleckstrin homology domain containing, family Fmember 2 , 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
GRCm38411,007,584 - 11,007,644EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1919051 AgrOrtholog
Ensembl Genes ENSMUSG00000049969 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000054776 ENTREZGENE
  ENSMUST00000054776.4 UniProtKB/Swiss-Prot
  ENSMUST00000137891.2 UniProtKB/TrEMBL
Gene3D-CATH 2.30.29.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro PH-like_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_domain-containing_F UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PH_Phafin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLEKHF2_FYVE UniProtKB/Swiss-Prot
  Znf_FYVE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_FYVE-rel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:71801 UniProtKB/Swiss-Prot
MGD MGI:1919051 ENTREZGENE
NCBI Gene 71801 ENTREZGENE
PANTHER PLECKSTRIN HOMOLOGY DOMAIN-CONTAINING FAMILY F MEMBER 2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PLECKSTRIN HOMOLOGY DOMAIN-CONTAINING FAMILY F MEMBER 2-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam FYVE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PF00169 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Plekhf2 PhenoGen
PROSITE PH_DOMAIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_FYVE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART FYVE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00233 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP PH domain-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57903 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A8Y5N8_MOUSE UniProtKB/TrEMBL
  PKHF2_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE