Mefv (MEFV innate immuity regulator, pyrin) - Rat Genome Database

Send us a Message



Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Gene: Mefv (MEFV innate immuity regulator, pyrin) Rattus norvegicus
Analyze
Symbol: Mefv
Name: MEFV innate immuity regulator, pyrin
RGD ID: 61889
Description: Predicted to enable actin binding activity; identical protein binding activity; and ubiquitin protein ligase activity. Involved in response to lipopolysaccharide and response to silicon dioxide. Predicted to be located in nucleus. Predicted to be part of microtubule associated complex. Predicted to be active in cytosol and nucleoplasm. Human ortholog(s) of this gene implicated in several diseases, including Henoch-Schoenlein purpura; Sweet syndrome; asthma; familial Mediterranean fever; and hematologic cancer (multiple). Orthologous to human MEFV (MEFV innate immuity regulator, pyrin); PARTICIPATES IN NOD-like receptor signaling pathway; INTERACTS WITH 2,4,6-trinitrotoluene; 6-propyl-2-thiouracil; acetamide.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: LOC102552366; marenostrin; Mediterranean fever; MEFV, pyrin innate immunity regulator; pyrin; uncharacterized LOC102552366
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Rnor_6.0 - RGSC Genome Assembly v6.0
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21011,786,948 - 11,796,977 (+)NCBI
Rnor_6.0 Ensembl1012,046,541 - 12,056,311 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01012,045,813 - 12,056,229 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01010,804,440 - 10,813,964 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41012,059,821 - 12,069,345 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11012,059,820 - 12,069,345 (+)NCBI
Celera1010,738,861 - 10,748,385 (+)NCBICelera
Cytogenetic Map10q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
1. Brik R, etal., Pediatr Pulmonol. 2003 Jun;35(6):452-5.
2. Celik S, etal., Int J Hematol. 2012 Mar;95(3):285-90. doi: 10.1007/s12185-012-1022-0. Epub 2012 Feb 18.
3. Celik S, etal., Int J Immunogenet. 2010 Oct;37(5):387-91. doi: 10.1111/j.1744-313X.2010.00938.x. Epub 2010 May 27.
4. Celik S, etal., Oncol Lett. 2014 Oct;8(4):1735-1738. Epub 2014 Aug 4.
5. Chae JJ, etal., Mamm Genome 2000 Jun;11(6):428-35.
6. Dogan CS, etal., Rheumatol Int. 2013 Feb;33(2):377-80. doi: 10.1007/s00296-012-2400-x. Epub 2012 Mar 27.
7. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
8. GOA data from the GO Consortium
9. He X, etal., Pediatr Nephrol. 2010 Oct;25(10):2077-82. doi: 10.1007/s00467-010-1582-2. Epub 2010 Jul 3.
10. MGD data from the GO Consortium
11. Mohammadnejad L and Farajnia S, Cell J. 2013 Summer;15(2):152-9. Epub 2013 Jul 2.
12. NCBI rat LocusLink and RefSeq merged data July 26, 2002
13. OMIM Disease Annotation Pipeline
14. Ong FS, etal., Clin Genet. 2013 Jul;84(1):55-9. doi: 10.1111/cge.12029. Epub 2012 Nov 7.
15. Ozalkaya E, etal., Rheumatol Int. 2010 Mar 9.
16. Pipeline to import KEGG annotations from KEGG into RGD
17. Rabinovitch E, etal., Ann Allergy Asthma Immunol. 2007 Dec;99(6):517-21.
18. Rao KM and Meighan T, J Toxicol Environ Health A. 2006 Mar;69(6):481-90.
19. RGD automated data pipeline
20. RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
21. RGD automated import pipeline for gene-chemical interactions
22. RGD comprehensive gene curation
23. Salah S, etal., Pediatr Rheumatol Online J. 2014 Sep 9;12:41. doi: 10.1186/1546-0096-12-41. eCollection 2014.
24. Sayan O, etal., Indian J Hematol Blood Transfus. 2011 Sep;27(3):164-8. doi: 10.1007/s12288-011-0095-x. Epub 2011 Jul 21.
25. Tentative Sequence Data IDs. TIGR Gene Index, Rat Data
Additional References at PubMed
PMID:11115844   PMID:11468188   PMID:16403826   PMID:17964261   PMID:19158676   PMID:20041150   PMID:22829933   PMID:25006247   PMID:26347139  


Genomics

Comparative Map Data
Mefv
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21011,786,948 - 11,796,977 (+)NCBI
Rnor_6.0 Ensembl1012,046,541 - 12,056,311 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.01012,045,813 - 12,056,229 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_5.01010,804,440 - 10,813,964 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41012,059,821 - 12,069,345 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11012,059,820 - 12,069,345 (+)NCBI
Celera1010,738,861 - 10,748,385 (+)NCBICelera
Cytogenetic Map10q12NCBI
MEFV
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl163,242,027 - 3,256,633 (-)EnsemblGRCh38hg38GRCh38
GRCh38163,242,027 - 3,256,776 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh37163,292,027 - 3,306,633 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36163,232,029 - 3,246,628 (-)NCBINCBI36hg18NCBI36
Build 34163,232,028 - 3,246,628NCBI
Celera163,497,690 - 3,512,281 (-)NCBI
Cytogenetic Map16p13.3NCBI
HuRef163,261,626 - 3,276,174 (-)NCBIHuRef
CHM1_1163,291,965 - 3,306,560 (-)NCBICHM1_1
Mefv
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39163,524,838 - 3,536,073 (-)NCBIGRCm39mm39
GRCm39 Ensembl163,525,082 - 3,535,961 (-)Ensembl
GRCm38163,706,974 - 3,718,211 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl163,707,218 - 3,718,097 (-)EnsemblGRCm38mm10GRCm38
MGSCv37163,707,215 - 3,718,124 (-)NCBIGRCm37mm9NCBIm37
MGSCv36163,622,443 - 3,633,325 (-)NCBImm8
Celera164,345,682 - 4,356,386 (-)NCBICelera
Cytogenetic Map16A1NCBI
cM Map162.18NCBI
Mefv
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495544214,068,348 - 14,094,016 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495544214,068,436 - 14,093,889 (+)NCBIChiLan1.0ChiLan1.0
MEFV
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.1163,354,981 - 3,368,970 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl163,353,666 - 3,368,970 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0162,175,858 - 2,191,056 (-)NCBIMhudiblu_PPA_v0panPan3
MEFV
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1637,964,776 - 37,984,830 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl637,970,608 - 37,983,737 (+)EnsemblCanFam3.1canFam3CanFam3.1
ROS_Cfam_1.0638,276,711 - 38,296,162 (+)NCBI
UMICH_Zoey_3.1637,962,758 - 37,982,210 (+)NCBI
UNSW_CanFamBas_1.0637,935,294 - 37,954,719 (+)NCBI
UU_Cfam_GSD_1.0638,410,844 - 38,430,317 (+)NCBI
Mefv
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344105,728,858 - 105,739,439 (-)NCBI
SpeTri2.0NW_004936694970,706 - 980,605 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
MEFV
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1338,934,573 - 38,948,609 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2340,322,567 - 40,336,494 (+)NCBISscrofa10.2Sscrofa10.2susScr3
MEFV
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.152,971,323 - 2,991,501 (-)NCBI
Vero_WHO_p1.0NW_02366606827,841,180 - 27,856,544 (+)NCBI
Mefv
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248241,035,172 - 1,047,632 (-)NCBI

Position Markers
AI177426  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21011,796,662 - 11,796,880 (+)MAPPER
Rnor_6.01012,055,915 - 12,056,132NCBIRnor6.0
Rnor_5.01010,813,654 - 10,813,871UniSTSRnor5.0
RGSC_v3.41012,069,035 - 12,069,252UniSTSRGSC3.4
Celera1010,748,075 - 10,748,292UniSTS
Cytogenetic Map10q12UniSTS


QTLs in Region (Rnor_6.0)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
7387235Uae41Urinary albumin excretion QTL 415.260.1874urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)10129592136Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135538813Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138594330Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142669970Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)10144902893Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1076442166221621Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10483563820170031Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10521719917555534Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10521719919591669Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)cortical volumetric bone mineral density (CMO:0001730)10546011921524070Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10546011921524070Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10546011921524070Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10546011921524070Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10546011921524070Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10587753664401490Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10622909575983805Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10622928936185929Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10642907599492409Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10752145052521450Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109841807108540162Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:403
Count of miRNA genes:221
Interacting mature miRNAs:249
Transcripts:ENSRNOT00000011073
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.


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 11
Low 3 13 30 17 8 17 3 17 14 11
Below cutoff 14 27 24 24 8 11 53 14 19 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000011073   ⟹   ENSRNOP00000011073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1012,046,701 - 12,056,222 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000081191   ⟹   ENSRNOP00000070256
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1012,046,541 - 12,056,311 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000084004   ⟹   ENSRNOP00000070644
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1012,046,736 - 12,055,314 (+)Ensembl
RefSeq Acc Id: NM_031634   ⟹   NP_113822
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21011,787,422 - 11,796,973 (+)NCBI
Rnor_6.01012,046,701 - 12,056,225 (+)NCBI
Rnor_5.01010,804,440 - 10,813,964 (+)NCBI
RGSC_v3.41012,059,821 - 12,069,345 (+)RGD
Celera1010,738,861 - 10,748,385 (+)RGD
Sequence:
RefSeq Acc Id: XM_017597486   ⟹   XP_017452975
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21011,786,948 - 11,796,977 (+)NCBI
Rnor_6.01012,045,813 - 12,056,229 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017597488   ⟹   XP_017452977
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21011,786,949 - 11,796,977 (+)NCBI
Rnor_6.01012,045,813 - 12,056,229 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039086716   ⟹   XP_038942644
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21011,786,948 - 11,796,977 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_113822   ⟸   NM_031634
- Sequence:
RefSeq Acc Id: XP_017452975   ⟸   XM_017597486
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017452977   ⟸   XM_017597488
- Peptide Label: isoform X2
- UniProtKB: A0A0G2JXG0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000070256   ⟸   ENSRNOT00000081191
RefSeq Acc Id: ENSRNOP00000070644   ⟸   ENSRNOT00000084004
RefSeq Acc Id: ENSRNOP00000011073   ⟸   ENSRNOT00000011073
RefSeq Acc Id: XP_038942644   ⟸   XM_039086716
- Peptide Label: isoform X1
Protein Domains
B box-type   Pyrin

Transcriptome

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


Strain Variation

Strain Sequence Variants (Rnor 6.0)
ACI/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
ACI/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
ACI/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
BBDP/Wor (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
BN/SsN (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
Buf/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
COP/CrCrl (MCW & UW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
University of Wisconsin (Dr. James Shull)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Charles River Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob) and UW Madison (Dr. James Shull)
F344/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
F344/NRrrc (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
FHH/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHH/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
FHL/EurMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
FHL/EurMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
GH/OmrMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
GK/Ox (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LE/Stm (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/Crl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LEW/NCrlBR (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LH/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LL/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
LN/MavRrrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
M520/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
MHS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MNS/Gib (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
MR/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
SBH/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBH/Ygl sequenced by MCW
SBH/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SBN/Ygl (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: SBN/Ygl sequenced by MCW
SBN/Ygl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHR/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SHRSP/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SR/JrHsd (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Harlan Laboratories
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SR/JrHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/Jr (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
SS/JrHsdMcwi (MCW)
Visual CSV TAB Printer
Sequenced By: Medical College of Wisconsin (Dr. Howard Jacob)
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA v0.7.7 and GATK v3.2-2
Breeder: Medical College of Wisconsin
Description: Provided by the Medical College of Wisconsin (Dr. Howard Jacob)
SS/JrHsdMcwi (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WAG/Rij (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/Gcrc (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin
WKY/NCrl (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WKY/NHsd (RGD)
Visual CSV TAB Printer
Platform: Illumina HiSeq 2000
Secondary Analysis: BWA mem 0.7.15, GATK v.3.6-0
Description: Sequences from Atanur et al and Hermsen et al realigned to the Rnor 6.0 assembly and reanalyzed by RGD
WN/N (MCW)
Visual CSV TAB Printer
Sequenced By: Royal Netherland Academy of Arts and Sciences (Dr. Edwin Cuppen)
Max Delbruck Center for Molecular Medicine (Dr. Norbert Huebner)
Platform: SOLiD 4 and 5500
Secondary Analysis: liftOver (Batch Coordinate Conversion)--genome.ucsc.edu
Breeder: National Institutes of Health
Description: Founder strain for the heterogeneous stock (HS) rat population; SNPs from the RGSC 3.4 assembly were "lifted over" from RGSC 3.4 to Rnor 5.0 and from Rnor 5.0 to Rnor 6.0; Provided by Medical College of Wisconsin

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:61889 AgrOrtholog
Ensembl Genes ENSRNOG00000008134 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000011073 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070256 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOP00000070644 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000011073 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000081191 UniProtKB/TrEMBL
  ENSRNOT00000084004 UniProtKB/TrEMBL
InterPro DAPIN UniProtKB/TrEMBL
  DEATH-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Pyrin UniProtKB/Swiss-Prot
  Pyrin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Znf_B-box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:58923 UniProtKB/Swiss-Prot
NCBI Gene 58923 ENTREZGENE
PANTHER PTHR24103:SF606 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam PAAD_DAPIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  zf-B_box UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Mefv PhenoGen
PROSITE DAPIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ZF_BBOX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART BBOX UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PYRIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP DEATH_like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
TIGR TC233290
UniProt A0A0G2JXG0 ENTREZGENE, UniProtKB/TrEMBL
  A0A0G2JYG3_RAT UniProtKB/TrEMBL
  F1LSH4_RAT UniProtKB/TrEMBL
  MEFV_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-04-10 Mefv  MEFV innate immuity regulator, pyrin  Mefv  MEFV, pyrin innate immunity regulator  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2017-01-17 Mefv  MEFV, pyrin innate immunity regulator  Mefv  Mediterranean fever  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2015-07-29 Mefv  Mediterranean fever  LOC102552366  uncharacterized LOC102552366  Data Merged 737654 PROVISIONAL
2013-12-18 LOC102552366  uncharacterized LOC102552366      Symbol and Name status set to provisional 70820 PROVISIONAL
2004-09-10 Mefv  Mediterranean fever    Mediterranean fever   Name updated 1299863 APPROVED
2002-06-10 Mefv  Mediterranean fever       Name updated 70584 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_domains contains a bZIP basic domain, a B-box zinc finger domain, an a-helical or potential coiled-coil domain, and two nuclear localization signals; lacks the B30.2 (rfp) domain of human homolog 61661