Fundc1 (FUN14 domain containing 1) - Rat Genome Database

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Gene: Fundc1 (FUN14 domain containing 1) Rattus norvegicus
Analyze
Symbol: Fundc1
Name: FUN14 domain containing 1
RGD ID: 1563372
Description: Involved in response to organonitrogen compound. Predicted to be located in mitochondrial outer membrane. Orthologous to human FUNDC1 (FUN14 domain containing 1); PARTICIPATES IN mitochondrial autophagy pathway; INTERACTS WITH 2,2',5,5'-tetrachlorobiphenyl; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: FUN14 domain-containing protein 1; MGC109382
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
GRCr8X7,666,787 - 7,683,443 (+)NCBIGRCr8
mRatBN7.2X5,083,635 - 5,100,293 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX5,083,617 - 5,100,284 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX5,136,794 - 5,153,466 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X8,612,588 - 8,629,261 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X4,932,812 - 4,949,480 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X5,549,468 - 5,566,125 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX5,549,419 - 5,566,127 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X6,329,908 - 6,346,565 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X16,672,818 - 16,689,475 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX5,589,536 - 5,606,194 (+)NCBICelera
Cytogenetic MapXq11NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. Prolyl-4-Hydroxylases Inhibitor Stabilizes HIF-1a and Increases Mitophagy to Reduce Cell Death After Experimental Retinal Detachment. Liu H, etal., Invest Ophthalmol Vis Sci. 2016 Apr;57(4):1807-15. doi: 10.1167/iovs.15-18066.
3. Mitochondrial outer-membrane protein FUNDC1 mediates hypoxia-induced mitophagy in mammalian cells. Liu L, etal., Nat Cell Biol. 2012 Jan 22;14(2):177-85. doi: 10.1038/ncb2422.
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Comprehensive gene review and curation RGD comprehensive gene curation
7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
8. Selective removal of mitochondria via mitophagy: distinct pathways for different mitochondrial stresses. Wei H, etal., Biochim Biophys Acta. 2015 Oct;1853(10 Pt B):2784-90. doi: 10.1016/j.bbamcr.2015.03.013. Epub 2015 Apr 1.
9. Hypoxic mitophagy regulates mitochondrial quality and platelet activation and determines severity of I/R heart injury. Zhang W, etal., Elife. 2016 Dec 20;5. pii: e21407. doi: 10.7554/eLife.21407.
Additional References at PubMed
PMID:15489334   PMID:33106833   PMID:34115550  


Genomics

Comparative Map Data
Fundc1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X7,666,787 - 7,683,443 (+)NCBIGRCr8
mRatBN7.2X5,083,635 - 5,100,293 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX5,083,617 - 5,100,284 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX5,136,794 - 5,153,466 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X8,612,588 - 8,629,261 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X4,932,812 - 4,949,480 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X5,549,468 - 5,566,125 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX5,549,419 - 5,566,127 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X6,329,908 - 6,346,565 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X16,672,818 - 16,689,475 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX5,589,536 - 5,606,194 (+)NCBICelera
Cytogenetic MapXq11NCBI
FUNDC1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X44,523,639 - 44,542,859 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX44,523,639 - 44,542,859 (-)EnsemblGRCh38hg38GRCh38
GRCh37X44,382,885 - 44,402,105 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X44,267,847 - 44,287,160 (-)NCBINCBI36Build 36hg18NCBI36
Build 34X44,139,158 - 44,158,470NCBI
CeleraX48,519,971 - 48,539,287 (-)NCBICelera
Cytogenetic MapXp11.3NCBI
HuRefX42,105,885 - 42,125,812 (-)NCBIHuRef
CHM1_1X44,415,841 - 44,435,193 (-)NCBICHM1_1
T2T-CHM13v2.0X43,930,462 - 43,949,676 (-)NCBIT2T-CHM13v2.0
Fundc1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X17,386,206 - 17,438,600 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX17,422,803 - 17,438,564 (-)EnsemblGRCm39 Ensembl
GRCm38X17,519,967 - 17,572,329 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX17,556,564 - 17,572,325 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X17,133,695 - 17,149,423 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X16,713,528 - 16,729,256 (-)NCBIMGSCv36mm8
CeleraX15,168,138 - 15,183,866 (-)NCBICelera
Cytogenetic MapXA1.2NCBI
cM MapX12.8NCBI
Fundc1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555163,648,629 - 3,664,032 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555163,648,629 - 3,664,032 (+)NCBIChiLan1.0ChiLan1.0
FUNDC1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X46,169,288 - 46,188,398 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X46,172,661 - 46,191,723 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X36,970,051 - 36,989,276 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X44,790,550 - 44,809,318 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX44,790,550 - 44,809,793 (-)Ensemblpanpan1.1panPan2
FUNDC1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X38,492,470 - 38,505,512 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX38,492,720 - 38,505,424 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX25,720,234 - 25,733,280 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X38,581,261 - 38,594,306 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX38,577,447 - 38,594,178 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X38,614,716 - 38,627,760 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X38,594,940 - 38,607,984 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X38,693,558 - 38,706,604 (-)NCBIUU_Cfam_GSD_1.0
Fundc1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X30,803,266 - 30,816,345 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493650210,643,071 - 10,657,134 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493650210,643,172 - 10,657,118 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
FUNDC1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX39,724,998 - 39,737,532 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X39,726,194 - 39,737,663 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X44,109,888 - 44,121,363 (-)NCBISscrofa10.2Sscrofa10.2susScr3
FUNDC1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X41,685,945 - 41,705,037 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660766,906,483 - 6,926,162 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Fundc1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624887626,321 - 641,293 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624887626,321 - 641,296 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Fundc1
20 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:927
Count of miRNA genes:316
Interacting mature miRNAs:421
Transcripts:ENSRNOT00000004676
Prediction methods:Microtar, Miranda, Pita, 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
731181Uae27Urinary albumin excretion QTL 272.70.0059urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)X143491017Rat
70166Bp65Blood pressure QTL 655.8arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144797211374346Rat
634325Bw13Body weight QTL 130body mass (VT:0001259)body weight (CMO:0000012)X144797220991088Rat
70165Bp64Blood pressure QTL 645.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)X144812931706553Rat
631204Gluco15Glucose level QTL 150.001blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)X162371522646544Rat
1298071Edpm12Estrogen-dependent pituitary mass QTL 123.2pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)X292789847927898Rat
10755455Coatc13Coat color QTL 130coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7440600049406000Rat
631666Iddm5Insulin dependent diabetes mellitus QTL 5blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)X449454949494549Rat

Markers in Region
RH132006  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X5,099,997 - 5,100,194 (+)MAPPERmRatBN7.2
Rnor_6.0X5,565,830 - 5,566,026NCBIRnor6.0
Rnor_5.0X6,346,270 - 6,346,466UniSTSRnor5.0
RGSC_v3.4X16,689,180 - 16,689,376UniSTSRGSC3.4
CeleraX5,605,899 - 5,606,095UniSTS
Cytogenetic MapXq12UniSTS


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 3 43 40 24 19 24 8 10 74 34 34 11 8
Low 17 17 17 1 1 6
Below cutoff 1

Sequence


RefSeq Acc Id: ENSRNOT00000004676   ⟹   ENSRNOP00000004676
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX5,083,756 - 5,100,284 (+)Ensembl
Rnor_6.0 EnsemblX5,549,419 - 5,566,127 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000094309   ⟹   ENSRNOP00000092608
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX5,083,617 - 5,098,932 (+)Ensembl
RefSeq Acc Id: NM_001025027   ⟹   NP_001020198
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X7,666,787 - 7,683,443 (+)NCBI
mRatBN7.2X5,083,635 - 5,100,293 (+)NCBI
Rnor_6.0X5,549,468 - 5,566,125 (+)NCBI
Rnor_5.0X6,329,908 - 6,346,565 (+)NCBI
RGSC_v3.4X16,672,818 - 16,689,475 (+)RGD
CeleraX5,589,536 - 5,606,194 (+)RGD
Sequence:
RefSeq Acc Id: NP_001020198   ⟸   NM_001025027
- UniProtKB: Q5BJS4 (UniProtKB/Swiss-Prot),   A6JZV7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000004676   ⟸   ENSRNOT00000004676
RefSeq Acc Id: ENSRNOP00000092608   ⟸   ENSRNOT00000094309

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5BJS4-F1-model_v2 AlphaFold Q5BJS4 1-155 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:1563372 AgrOrtholog
BioCyc Gene G2FUF-3122 BioCyc
Ensembl Genes ENSRNOG00000003470 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055016427 UniProtKB/Swiss-Prot
  ENSRNOG00060020771 UniProtKB/Swiss-Prot
  ENSRNOG00065021069 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000004676 ENTREZGENE
  ENSRNOT00000004676.7 UniProtKB/Swiss-Prot
  ENSRNOT00000094309.1 UniProtKB/TrEMBL
  ENSRNOT00055027852 UniProtKB/Swiss-Prot
  ENSRNOT00060036003 UniProtKB/Swiss-Prot
  ENSRNOT00065035823 UniProtKB/Swiss-Prot
IMAGE_CLONE IMAGE:7317238 IMAGE-MGC_LOAD
InterPro FUN14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:363442 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:109382 IMAGE-MGC_LOAD
NCBI Gene 363442 ENTREZGENE
PANTHER FUN14 DOMAIN-CONTAINING PROTEIN 1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR21346 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam FUN14 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Fundc1 PhenoGen
RatGTEx ENSRNOG00000003470 RatGTEx
  ENSRNOG00055016427 RatGTEx
  ENSRNOG00060020771 RatGTEx
  ENSRNOG00065021069 RatGTEx
UniProt A0A8I6GJV7_RAT UniProtKB/TrEMBL
  A6JZV7 ENTREZGENE, UniProtKB/TrEMBL
  A6JZV8_RAT UniProtKB/TrEMBL
  A6JZV9_RAT UniProtKB/TrEMBL
  A6JZW1_RAT UniProtKB/TrEMBL
  A6JZW4_RAT UniProtKB/TrEMBL
  A6JZW5_RAT UniProtKB/TrEMBL
  FUND1_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2006-02-09 Fundc1  FUN14 domain containing 1      Symbol and Name status set to provisional 70820 PROVISIONAL