Clec4f (C-type lectin domain family 4, member f) - Rat Genome Database
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Gene: Clec4f (C-type lectin domain family 4, member f) Mus musculus
Analyze
Symbol: Clec4f
Name: C-type lectin domain family 4, member f
RGD ID: 1553051
MGI Page MGI
Description: Is expressed in liver; liver lobe; and liver sinusoid. Orthologous to human CLEC4F (C-type lectin domain family 4 member F); INTERACTS WITH 17alpha-ethynylestradiol; 2,2',4,4'-Tetrabromodiphenyl ether; 2,3,7,8-tetrachlorodibenzodioxine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Also known as: C-type (calcium dependent, carbohydrate recognition domain) lectin, superfamily member 13; C-type lectin 13; C-type lectin domain family 4 member F; C-type lectin superfamily member 13; Clecsf; Clecsf13; D18063; Kclr; KUCR_MOUSE; Kupffer cell c-type lectin receptor; kupffer cell receptor
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39683,621,524 - 83,633,098 (-)NCBIGRCm39mm39
GRCm39 Ensembl683,621,524 - 83,633,169 (-)Ensembl
GRCm38683,644,542 - 83,656,116 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl683,644,542 - 83,656,187 (-)EnsemblGRCm38mm10GRCm38
MGSCv37683,594,536 - 83,606,110 (-)NCBIGRCm37mm9NCBIm37
MGSCv36683,610,200 - 83,621,774 (-)NCBImm8
Celera685,626,646 - 85,638,216 (-)NCBICelera
Cytogenetic Map6C3NCBI
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

Mammalian Phenotype
References

Additional References at PubMed
PMID:8863742   PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12477932   PMID:15489334   PMID:16141072   PMID:16141073   PMID:21267068   PMID:21677750   PMID:23762286  
PMID:30076102   PMID:30590594   PMID:31561945   PMID:31587991  


Genomics

Comparative Map Data
Clec4f
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39683,621,524 - 83,633,098 (-)NCBIGRCm39mm39
GRCm39 Ensembl683,621,524 - 83,633,169 (-)Ensembl
GRCm38683,644,542 - 83,656,116 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl683,644,542 - 83,656,187 (-)EnsemblGRCm38mm10GRCm38
MGSCv37683,594,536 - 83,606,110 (-)NCBIGRCm37mm9NCBIm37
MGSCv36683,610,200 - 83,621,774 (-)NCBImm8
Celera685,626,646 - 85,638,216 (-)NCBICelera
Cytogenetic Map6C3NCBI
CLEC4F
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl270,808,643 - 70,820,599 (-)EnsemblGRCh38hg38GRCh38
GRCh38270,808,643 - 70,825,235 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37271,035,775 - 71,047,731 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36270,889,283 - 70,901,240 (-)NCBINCBI36hg18NCBI36
Build 34270,947,432 - 70,959,387NCBI
Celera270,886,456 - 70,898,414 (-)NCBI
Cytogenetic Map2p13.3NCBI
HuRef270,772,576 - 70,784,093 (-)NCBIHuRef
CHM1_1270,965,099 - 70,977,053 (-)NCBICHM1_1
Clec4f
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24116,129,023 - 116,138,744 (-)NCBI
Rnor_6.0 Ensembl4115,322,291 - 115,332,052 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.04115,322,300 - 115,332,021 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.04179,911,569 - 179,921,290 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44117,839,863 - 117,849,584 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.14118,084,343 - 118,094,065 (-)NCBI
Celera4105,121,362 - 105,131,083 (-)NCBICelera
Cytogenetic Map4q34NCBI
Clec4f
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542414,367,192 - 14,381,350 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495542414,365,348 - 14,379,664 (+)NCBIChiLan1.0ChiLan1.0
CLEC4F
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A71,985,988 - 71,997,123 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A71,985,814 - 71,997,123 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A70,872,242 - 70,883,547 (-)NCBIMhudiblu_PPA_v0panPan3
CLEC4F
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl1069,170,437 - 69,179,914 (-)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.11069,170,393 - 69,179,578 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Clec4f
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_00493649115,005,474 - 15,018,031 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
CLEC4F
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl371,677,918 - 71,696,390 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1371,683,898 - 71,696,357 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
CLEC4F
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11436,293,963 - 36,304,590 (+)NCBI
Clec4f
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046247622,567,854 - 2,584,329 (+)NCBI

Position Markers
D18063  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38683,645,069 - 83,645,164UniSTSGRCm38
MGSCv37683,595,063 - 83,595,158UniSTSGRCm37
Celera685,627,173 - 85,627,268UniSTS
Cytogenetic Map6C3UniSTS
Whitehead/MRC_RH6851.41UniSTS
D6Mit69  
Mouse AssemblyChrPosition (strand)SourceJBrowse
GRCm38683,645,707 - 83,645,868UniSTSGRCm38
MGSCv37683,595,701 - 83,595,862UniSTSGRCm37
Celera685,627,811 - 85,627,972UniSTS
Cytogenetic Map6C3UniSTS
cM Map635.15UniSTS
Whitehead Genetic625.1UniSTS
Whitehead/MRC_RH6855.51UniSTS


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
25440480Moaq2_mmodifier of alien QTL 2 (mouse)61117500000Mouse
26884414Bzwq12_mbi-zygomatic width QTL 12, 16 week (mouse)63400000139100000Mouse
1300556Cia6_mcollagen induced arthritis QTL 6 (mouse)Not determined6446488487426034Mouse
4142126W3q3_mweight 3 weeks QTL 3 (mouse)Not determined450382396656149Mouse
4142361W10q11_mweight 10 weeks QTL 11 (mouse)Not determined450382396656149Mouse
4142271Egq8_mearly growth QTL 8 (mouse)Not determined450382396656149Mouse
4142232W6q4_mweight 6 weeks QTL 4 (mouse)Not determined450382396656149Mouse
1558984Cplaq9_mcircadian period of locomotor activity 9 (mouse)Not determined63866962592607450Mouse
1300618Pgia19_mproteoglycan induced arthritis 19 (mouse)Not determined64531405987426034Mouse
10412157Fl1n_mfatty liver 1 in NSY (mouse)Not determined645314059128835032Mouse
4142259Tabw2_mtally ho associated body weight 2 (mouse)Not determined46935985136423692Mouse
25314319Histh6_mhistamine hypersensitivity 6 (mouse)648720000125360000Mouse
25314320Histh5_mhistamine hypersensitivity 5 (mouse)648720000148450000Mouse
1301962Eila2_methanol induced locomotor activity 2 (mouse)Not determined648726556125356785Mouse
1301254Skts11_mskin tumor susceptibility 11 (mouse)Not determined65117915085179300Mouse
1357683Igf1sl1_mIGF-1 serum levels 1 (mouse)Not determined652161713116155267Mouse
4141028Mclr_mmethylcholanthrene lymphoma resistance (mouse)Not determined5437342788379171Mouse
15039373Adip28_madiposity 28 (mouse)65630821190308211Mouse
15039375Bw41_mbody weight QTL 41 (mouse)65630821190308211Mouse
1558977Skmw10_mskeletal muscle weight 10 (mouse)Not determined65844758392447710Mouse
10043972Obq28_mobesity QTL 28 (mouse)Not determined65854043392540433Mouse
1301740Bwq2_mbody weight QTL 2 (mouse)Not determined66005768094057799Mouse
1301369Im4_mimmunoregulatory 4 (mouse)Not determined66348473897484905Mouse
1300650Bw18_mbody weight QTL 18 (mouse)Not determined666713869100714031Mouse
1301876Bits2_mbitterness sensitivity 2 (mouse)Not determined670425898104426034Mouse
1301813Skl3_mskeletal size (tail length) 3 (mouse)Not determined670425898104426034Mouse
1301034Egrm2_mearly growth rate (mouse)Not determined670425898104426034Mouse
4141990Etax6_methanol induced ataxia 6 (mouse)Not determined7132262186275719Mouse
1302020Bbaa20_mB.burgdorferi-associated arthritis 20 (mouse)Not determined67132262193464093Mouse
1300869Stheal5_msoft tissue heal 5 (mouse)Not determined671575060105575178Mouse
1300954Fcsa1_mfemoral cross-sectional area 1 (mouse)Not determined671981024105981170Mouse
1301521Pas1c_mpulmonary adenoma susceptibility 1c (mouse)Not determined671981024105981170Mouse
13506930Recrq9_mrecombination rate in male meiosis QTL 9 (mouse)673500000134700000Mouse
1301320Ots1_movarian teratoma susceptibility 1 (mouse)Not determined675447583104503555Mouse
1301571Arrd1_mage-related retinal degeneration 1 (mouse)Not determined67554435692607450Mouse
1300674Nidd3n_mnon-insulin-dependent diabetes mellitus 3 in NSY (mouse)Not determined67554435694225955Mouse
10412195Efw_mepididymal fat weight (mouse)Not determined67554435694225955Mouse
10043901Pfat5_mpredicted fat percentage 5 (mouse)Not determined675607306109607450Mouse
10412208Cypr4_mcytokine production 4 (mouse)Not determined675716503109716697Mouse
1357875Pfat2_mpredicted fat percentage 2 (mouse)Not determined676463949110464093Mouse
14697704Stsl4_mSalmonella typhimurium susceptibility locus 4 (mouse)67710000090000000Mouse
13824985Alh1_mamplitude of lateral head displacement 1 (mouse)67800000097000000Mouse
4141376Dbm1_mdiabetes modifier 1 (mouse)Not determined678629504121115387Mouse
14696731Pairq1_mP. aeruginosa infection resistance QTL 1 (mouse)681500000102200000Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:483
Count of miRNA genes:299
Interacting mature miRNAs:327
Transcripts:ENSMUST00000014686, ENSMUST00000137647
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.


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000014686   ⟹   ENSMUSP00000014686
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl683,644,542 - 83,656,187 (-)Ensembl
RefSeq Acc Id: ENSMUST00000137647
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl683,645,217 - 83,656,121 (-)Ensembl
RefSeq Acc Id: NM_016751   ⟹   NP_058031
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39683,621,524 - 83,633,098 (-)NCBI
GRCm38683,644,542 - 83,656,116 (-)ENTREZGENE
MGSCv37683,594,536 - 83,606,110 (-)RGD
Celera685,626,646 - 85,638,216 (-)RGD
cM Map6 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_036166277   ⟹   XP_036022170
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39683,621,998 - 83,631,658 (-)NCBI
Reference Sequences
RefSeq Acc Id: NP_058031   ⟸   NM_016751
- UniProtKB: P70194 (UniProtKB/Swiss-Prot),   A0A0R4IZZ5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000014686   ⟸   ENSMUST00000014686
RefSeq Acc Id: XP_036022170   ⟸   XM_036166277
- Peptide Label: isoform X1
Protein Domains
C-type lectin

Promoters
RGD ID:6890176
Promoter ID:EPDNEW_M8539
Type:initiation region
Name:Clec4f_1
Description:Mus musculus C-type lectin domain family 4, member f , 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
GRCm38683,656,108 - 83,656,168EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:1859834 AgrOrtholog
Ensembl Genes ENSMUSG00000014542 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSMUSP00000014686 ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000014686 ENTREZGENE, UniProtKB/TrEMBL
Gene3D-CATH 3.10.100.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro C-type_lectin-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin-like/link_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C-type_lectin_CS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CD209-like_CTLD UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  CTDL_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report mmu:51811 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGD MGI:1859834 ENTREZGENE
NCBI Gene 51811 ENTREZGENE
Pfam Lectin_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Clec4f PhenoGen
PROSITE C_TYPE_LECTIN_1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  C_TYPE_LECTIN_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART CLECT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF56436 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0R4IZZ5 ENTREZGENE, UniProtKB/TrEMBL
  CLC4F_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary Q8BLZ8 UniProtKB/Swiss-Prot