Il34 (interleukin 34) - Rat Genome Database

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Gene: Il34 (interleukin 34) Rattus norvegicus
Analyze
Symbol: Il34
Name: interleukin 34
RGD ID: 1586038
Description: Predicted to enable identical protein binding activity and macrophage colony-stimulating factor receptor binding activity. Predicted to be involved in several processes, including interleukin-34-mediated signaling pathway; positive regulation of cell development; and positive regulation of macromolecule metabolic process. Predicted to be active in extracellular space. Orthologous to human IL34 (interleukin 34); INTERACTS WITH 2,3,7,8-Tetrachlorodibenzofuran; 3,3',4,4',5-pentachlorobiphenyl; 4,4'-sulfonyldiphenol.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: IL-34; interleukin-34; LOC498951; MGC112852; similar to 2010004A03Rik protein
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81955,624,368 - 55,690,576 (-)NCBIGRCr8
mRatBN7.21938,714,990 - 38,782,749 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1938,714,991 - 38,764,000 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1945,520,176 - 45,534,560 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01946,173,544 - 46,187,927 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01948,484,111 - 48,498,359 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01940,855,537 - 40,905,007 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1940,855,433 - 40,904,121 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01951,680,005 - 51,729,266 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41940,662,723 - 40,676,634 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1938,108,703 - 38,123,111 (-)NCBICelera
Cytogenetic Map19q12NCBI
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
extracellular space  (IBA,IEA,ISO,ISS)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. Discovery of a cytokine and its receptor by functional screening of the extracellular proteome. Lin H, etal., Science. 2008 May 9;320(5877):807-11. doi: 10.1126/science.1154370.
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15489334   PMID:22483114   PMID:23392676   PMID:23409120   PMID:26389674   PMID:26754294   PMID:27445335   PMID:30687013   PMID:36030499  


Genomics

Comparative Map Data
Il34
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81955,624,368 - 55,690,576 (-)NCBIGRCr8
mRatBN7.21938,714,990 - 38,782,749 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1938,714,991 - 38,764,000 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1945,520,176 - 45,534,560 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01946,173,544 - 46,187,927 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01948,484,111 - 48,498,359 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01940,855,537 - 40,905,007 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1940,855,433 - 40,904,121 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01951,680,005 - 51,729,266 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41940,662,723 - 40,676,634 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1938,108,703 - 38,123,111 (-)NCBICelera
Cytogenetic Map19q12NCBI
IL34
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381670,579,899 - 70,660,682 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1670,579,895 - 70,660,682 (+)EnsemblGRCh38hg38GRCh38
GRCh371670,613,802 - 70,694,585 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361669,237,969 - 69,252,085 (+)NCBINCBI36Build 36hg18NCBI36
Celera1654,830,211 - 54,914,394 (-)NCBICelera
Cytogenetic Map16q22.1NCBI
HuRef1656,444,788 - 56,526,038 (+)NCBIHuRef
CHM1_11672,021,130 - 72,101,930 (+)NCBICHM1_1
T2T-CHM13v2.01676,391,088 - 76,471,868 (+)NCBIT2T-CHM13v2.0
Il34
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398111,467,809 - 111,532,579 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8111,468,461 - 111,532,556 (-)EnsemblGRCm39 Ensembl
GRCm388110,741,829 - 110,805,949 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8110,741,829 - 110,805,924 (-)EnsemblGRCm38mm10GRCm38
MGSCv378113,265,729 - 113,329,803 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368113,628,517 - 113,692,549 (-)NCBIMGSCv36mm8
Celera8114,965,768 - 115,029,412 (-)NCBICelera
Cytogenetic Map8E1NCBI
cM Map857.68NCBI
Il34
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554843,416,965 - 3,428,574 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554843,362,240 - 3,429,031 (+)NCBIChiLan1.0ChiLan1.0
IL34
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21883,505,787 - 83,583,507 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11689,439,379 - 89,512,788 (-)NCBINHGRI_mPanPan1
PanPan1.1 Ensembl1670,480,917 - 70,494,693 (+)Ensemblpanpan1.1panPan2
IL34
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1576,601,310 - 76,612,665 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl576,555,214 - 76,625,012 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha576,562,564 - 76,573,722 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0577,037,777 - 77,049,154 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl576,991,631 - 77,049,148 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1576,859,645 - 76,871,004 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0576,682,464 - 76,693,813 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0577,174,314 - 77,185,475 (+)NCBIUU_Cfam_GSD_1.0
Il34
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934936,558,176 - 36,621,152 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647522,967,930 - 22,979,641 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647522,967,962 - 22,979,954 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IL34
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl613,588,787 - 13,659,895 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1613,588,748 - 13,679,864 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2613,511,317 - 13,512,804 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IL34
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1553,731,330 - 53,802,142 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl553,731,379 - 53,801,650 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604716,529,863 - 16,614,250 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Il34
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474612,861,018 - 12,867,587 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474612,793,797 - 12,867,591 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Il34
405 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:399
Count of miRNA genes:224
Interacting mature miRNAs:263
Transcripts:ENSRNOT00000023823
Prediction methods:Microtar, Miranda, Rnahybrid
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)192481797839654489Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat

Markers in Region
RH127794  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21938,715,040 - 38,715,221 (-)MAPPERmRatBN7.2
Rnor_6.01940,904,133 - 40,904,313NCBIRnor6.0
Rnor_5.01951,728,392 - 51,728,572UniSTSRnor5.0
RGSC_v3.41940,662,774 - 40,662,954UniSTSRGSC3.4
Celera1938,108,754 - 38,108,934UniSTS
RH 3.4 Map19470.1UniSTS
Cytogenetic Map19q12UniSTS
BE120045  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21938,717,096 - 38,717,253 (-)MAPPERmRatBN7.2
Rnor_6.01940,902,101 - 40,902,257NCBIRnor6.0
Rnor_5.01951,726,360 - 51,726,516UniSTSRnor5.0
RGSC_v3.41940,664,830 - 40,664,986UniSTSRGSC3.4
Celera1938,110,810 - 38,110,966UniSTS
RH 3.4 Map19471.2UniSTS
Cytogenetic Map19q12UniSTS


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High
Medium 2 3 31 23 8 11
Low 1 29 43 27 16 27 8 11 29 10 29 8
Below cutoff 6 14 14 14 8 2 4

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000023823   ⟹   ENSRNOP00000023823
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1938,714,991 - 38,764,000 (-)Ensembl
Rnor_6.0 Ensembl1940,855,433 - 40,904,121 (+)Ensembl
RefSeq Acc Id: NM_001025766   ⟹   NP_001020937
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81955,624,368 - 55,638,605 (-)NCBI
mRatBN7.21938,714,990 - 38,729,226 (-)NCBI
Rnor_6.01940,890,544 - 40,904,364 (+)NCBI
Rnor_5.01951,680,005 - 51,729,266 (+)NCBI
RGSC_v3.41940,662,723 - 40,676,634 (-)RGD
Celera1938,108,703 - 38,123,111 (-)RGD
Sequence:
RefSeq Acc Id: XM_039097930   ⟹   XP_038953858
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81955,624,368 - 55,688,428 (-)NCBI
mRatBN7.21938,714,990 - 38,779,042 (-)NCBI
RefSeq Acc Id: XM_039097931   ⟹   XP_038953859
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81955,624,368 - 55,641,484 (-)NCBI
mRatBN7.21938,714,990 - 38,732,293 (-)NCBI
RefSeq Acc Id: XM_039097932   ⟹   XP_038953860
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81955,624,368 - 55,688,426 (-)NCBI
mRatBN7.21938,714,990 - 38,779,053 (-)NCBI
RefSeq Acc Id: XM_039097933   ⟹   XP_038953861
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81955,624,809 - 55,690,576 (-)NCBI
mRatBN7.21938,715,460 - 38,782,749 (-)NCBI
RefSeq Acc Id: XM_063278199   ⟹   XP_063134269
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81955,624,368 - 55,688,114 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001020937   ⟸   NM_001025766
- Peptide Label: precursor
- UniProtKB: Q4KM46 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSRNOP00000023823   ⟸   ENSRNOT00000023823
RefSeq Acc Id: XP_038953860   ⟸   XM_039097932
- Peptide Label: isoform X2
- UniProtKB: Q4KM46 (UniProtKB/Swiss-Prot)
RefSeq Acc Id: XP_038953858   ⟸   XM_039097930
- Peptide Label: isoform X1
- UniProtKB: A0A140TAD0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038953859   ⟸   XM_039097931
- Peptide Label: isoform X1
- UniProtKB: A0A140TAD0 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_038953861   ⟸   XM_039097933
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063134269   ⟸   XM_063278199
- Peptide Label: isoform X1

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q4KM46-F1-model_v2 AlphaFold Q4KM46 1-234 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1586038 AgrOrtholog
BioCyc Gene G2FUF-5686 BioCyc
Ensembl Genes ENSRNOG00000017602 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000023823.8 UniProtKB/TrEMBL
Gene3D-CATH 1.20.1250.80 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7106821 IMAGE-MGC_LOAD
  IMAGE:7376793 IMAGE-MGC_LOAD
InterPro IL-34 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IL-34_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:498951 UniProtKB/Swiss-Prot
MGC_CLONE MGC:112852 IMAGE-MGC_LOAD
  MGC:94787 IMAGE-MGC_LOAD
NCBI Gene 498951 ENTREZGENE
PANTHER INTERLEUKIN-34 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR28606 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam IL34 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Il34 PhenoGen
PRINTS INTRLEUKIN34 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000017602 RatGTEx
UniProt A0A140TAD0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8A1UCG2_RAT UniProtKB/TrEMBL
  IL34_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-10-23 Il34  interleukin 34  LOC498951  similar to 2010004A03Rik protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-11-19 LOC498951  similar to 2010004A03Rik protein      Symbol and Name status set to provisional 70820 PROVISIONAL