Raf1 MGI Mouse Gene Detail - MGI:97847 - v-raf-leukemia viral oncogene 1

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Raf1 Gene Detail
Summary
  • Symbol
    Raf1
  • Name
    v-raf-leukemia viral oncogene 1
  • Synonyms
    6430402F14Rik, c-Raf, Craf1, Raf-1, sarcoma 3611 oncogene, v-Raf
  • Feature Type
    protein coding gene
  • IDs
    MGI:97847
    NCBI Gene: 110157
  • Alliance
  • Transcription Start Sites
    7 TSS
  • Candidate for QTL
    2 QTL
Location &
Maps
more
  • Sequence Map
    Chr6:115595530-115653596 bp, - strand
    From NCBI annotation of GRCm39
  • View this region in JBrowse
  • Genome Browsers
  • Genetic Map
    Chromosome 6, 53.62 cM, cytoband C3
  • Mapping Data
    54 experiments
Strain
Comparison
more
  • SNPs within 2kb
    1107 from dbSNP Build 142
  • Strain Annotations
    18
  • RFLP
For selected strains:
Strain Gene Model ID Feature Type Coordinates Select Strains
C57BL/6J MGI_C57BL6J_97847
protein coding gene Chr6:115595028-115653596 (-)
129S1/SvImJ MGP_129S1SvImJ_G0031152
protein coding gene Chr6:118248781-118313275 (-)
A/J MGP_AJ_G0031121
protein coding gene Chr6:113707656-113768248 (-)
AKR/J MGP_AKRJ_G0031052
protein coding gene Chr6:116768381-116831285 (-)
BALB/cJ MGP_BALBcJ_G0031132
protein coding gene Chr6:113521662-113581514 (-)
C3H/HeJ MGP_C3HHeJ_G0030576
protein coding gene Chr6:67473015-67534393 (+)
C57BL/6NJ MGP_C57BL6NJ_G0031591
protein coding gene Chr6:121258493-121332000 (-)
CAROLI/EiJ MGP_CAROLIEiJ_G0028755
protein coding gene Chr6:110720200-110778550 (-)
CAST/EiJ MGP_CASTEiJ_G0030239
protein coding gene Chr6:117128336-117190179 (-)
CBA/J MGP_CBAJ_G0030818
protein coding gene Chr6:126015366-126086992 (-)
DBA/2J MGP_DBA2J_G0030971
protein coding gene Chr6:112638925-112697584 (-)
FVB/NJ MGP_FVBNJ_G0030925
protein coding gene Chr6:111811373-111874026 (-)
LP/J MGP_LPJ_G0031051
protein coding gene Chr6:118264205-118327250 (-)
NOD/ShiLtJ MGP_NODShiLtJ_G0030959
protein coding gene Chr6:130217337-130277902 (-)
NZO/HlLtJ MGP_NZOHlLtJ_G0031618
protein coding gene Chr6:116784902-116847184 (-)
PWK/PhJ MGP_PWKPhJ_G0029955
protein coding gene Chr6:111647791-111707204 (-)
SPRET/EiJ MGP_SPRETEiJ_G0029783
protein coding gene Chr6:115500235-115562544 (-)
WSB/EiJ MGP_WSBEiJ_G0030323
protein coding gene Chr6:117044646-117110514 (-)



Homology
more
  • Human Ortholog
    RAF1, Raf-1 proto-oncogene, serine/threonine kinase
  • Vertebrate Orthologs
    4
Vertebrate Orthology Source
Alliance of Genome Resources
  • Human Ortholog
    RAF1, Raf-1 proto-oncogene, serine/threonine kinase
  • Synonyms
    CMD1NN, c-Raf, CRAF, NS5, Raf-1
  • Links
    NCBI Gene ID: 5894
    UniProt: P04049

  • Chr Location
    3p25.2; chr3:12582101-12664201 (-) GRCh38
Human Diseases
more
  • Diseases
    1 with Raf1 mouse models; 6 with human RAF1 associations

Human Disease Mouse Models
IDs
Noonan syndrome 5
View 2 models
Mouse Models

Human Disease Modeled: Noonan syndrome 5

Allelic Composition Genetic Background Reference Phenotypes
Raf1tm1.1Bgn/Raf1+
 involves: 129S6/SvEvTac * C57BL/6NCr J:172034 View
Raf1tm2.1Ara/Raf1tm2.1Ara
involves: 129S6/SvEvTac * C57BL/6NCr J:189143 View
IDs
dilated cardiomyopathy 1NN

DOID:0110432
ICD10CM:I42.0
OMIM:615916

IDs
Noonan syndrome

DOID:3490
ICD10CM:Q87.19
MESH:D009634
NCI:C34854
OMIM:PS163950
ORDO:648
UMLS_CUI:C0028326
IDs
Noonan syndrome with multiple lentigines 2
IDs
pancreatic adenocarcinoma

DOID:4074
NCI:C8294
UMLS_CUI:C0281361
IDs
prostate adenocarcinoma

DOID:2526
NCI:C2919
UMLS_CUI:C0007112
Click on a disease name to see all genes associated with that disease.

  • Mutations/Alleles
    3 with disease annotations
  • References
    3 with disease annotations
Mutations,
Alleles, and
Phenotypes
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  • Phenotype Summary
    102 phenotypes from 9 alleles in 13 genetic backgrounds
    33 phenotypes from multigenic genotypes
    4 images
    68 phenotype references
Phenotype Overview

Phenotype Overview
Blue squares indicate phenotypes directly attributed to mutations/alleles of this gene.
adipose tissue
behavior/neurological
cardiovascular system
cellular
craniofacial
digestive/alimentary system
embryo
endocrine/exocrine glands
growth/size/body
hearing/vestibular/ear
hematopoietic system
homeostasis/metabolism
integument
immune system
limbs/digits/tail
liver/biliary system
mortality/aging
muscle
nervous system
pigmentation
renal/urinary system
reproductive system
respiratory system
skeleton
taste/olfaction
neoplasm
vision/eye

Click cells to view annotations.
Homozygotes for targeted null mutations are growth retarded, with hypocellular fetal livers, placental anomalies, and defects of skin and lungs, resulting in lethality around mid-gestation. Mice heterozygous for a knock-in allele exhibit hypertrophic cardiomyopathy.
Gene Ontology
(GO)
Classifications
less
  • All GO Annotations
  • GO References
Molecular Function

carbohydrate derivative binding
cytoskeletal protein binding
DNA binding
enzyme regulator
hydrolase
ligase
lipid binding
oxidoreductase
RNA binding
signaling receptor activity
signaling receptor binding
transcription
transferase
transporter
Biological Process

carbohydrate derivative metabolism
cell differentiation
cell population proliferation
cellular component organization
DNA-templated transcription
establishment of localization
homeostatic process
immune system process
lipid metabolic process
programmed cell death
protein metabolic process
response to stimulus
signaling
system development
Cellular Component

cell projection
cytoplasmic vesicle
cytoskeleton
cytosol
endoplasmic reticulum
endosome
extracellular region
Golgi apparatus
mitochondrion
membraneless organelle
nucleus
organelle envelope
organelle lumen
plasma membrane
protein-containing complex
synapse
vacuole
Click cells to view annotations.
Expression
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Expression Overview

Expression Overview
GXD's primary emphasis is on endogenous gene expression during development. Click on grid cells to view annotations.
  • Blue cells = expressed in wild-type.
    Gray triangles = other expression annotations only
    (e.g. absence of expression or data from mutants).
early conceptus
embryo ectoderm
embryo endoderm
embryo mesoderm
embryo mesenchyme
extraembryonic component
alimentary system
auditory system
branchial arches
cardiovascular system
connective tissue
endocrine system
exocrine system
hemolymphoid system
integumental system
limbs
liver and biliary system
musculoskeletal system
nervous system
olfactory system
reproductive system
respiratory system
urinary system
visual system
Click cells to view annotations.


  • Assay Results
  • Tissues
  • cDNA Data
  • Literature Summary
  • Comparison Matrix
    • Sequences &
    Gene Models
    less
    Representative SequencesLengthStrain/SpeciesFlank
    genomic 110157 NCBI Gene Model | MGI Sequence Detail 58067 C57BL/6J ± kb
    transcript NM_001356333 RefSeq | MGI Sequence Detail 3130 ZRU/MplStud
    polypeptide Q99N57 UniProt | EBI | MGI Sequence Detail 648 Not Applicable
    For the selected sequence
    Protein
    Information
    less
    • UniProt
      7 Sequences
    • Protein Ontology
      PR:000003244 RAF proto-oncogene serine/threonine-protein kinase
    • EC
    • InterPro Domains
      IPR046349 C1-like domain superfamily
      IPR020454 Diacylglycerol/phorbol-ester binding
      IPR017441 Protein kinase, ATP binding site
      IPR002219 Protein kinase C-like, phorbol ester/diacylglycerol-binding domain
      IPR000719 Protein kinase domain
      IPR011009 Protein kinase-like domain superfamily
      IPR003116 Raf-like Ras-binding
      IPR051681 Serine/Threonine Kinases and Pseudokinases
      IPR008271 Serine/threonine-protein kinase, active site
      IPR001245 Serine-threonine/tyrosine-protein kinase, catalytic domain
      IPR029071 Ubiquitin-like domain superfamily
    • GlyGen
      Q99N57 2 sites, 1 N-linked glycan (1 site)
    Molecular
    Reagents
    less
    • All nucleic 35
      Genomic 4
      cDNA 21
      Primer pair 3
      Other 7

      Microarray probesets 5
    Other
    Accession IDs
    less
    MGD-MRK-13751, MGD-MRK-13752, MGI:1277195, MGI:1924126, MGI:2141729, MGI:2146790
    References
    more
    • Summaries
      All 258
      Developmental Gene Expression 25
      Diseases 3
      Gene Ontology 39
      Phenotypes 68
    • Earliest
      J:7145 Rapp UR, et al., Structure and biological activity of v-raf, a unique oncogene transduced by a retrovirus. Proc Natl Acad Sci U S A. 1983 Jul;80(14):4218-22
    • Latest
      J:353442 Luo X, et al., Casein kinase 1alpha mediates estradiol secretion via CYP19A1 expression in mouse ovarian granulosa cells. BMC Biol. 2024 Aug 26;22(1):176
    TSS for Raf1:
    (View these features in JBrowse)
    Transcription Start Site Location Distance from Gene 5'-end
    Tssr62525 Chr6:115653584-115653603 (-) 2 bp
    Tssr62524 Chr6:115653562-115653579 (-) 25 bp
    Tssr62523 Chr6:115653433-115653539 (-) 110 bp
    Tssr62522 Chr6:115652832-115652848 (-) 756 bp
    Tssr62521 Chr6:115638692-115638710 (-) 14,895 bp
    Tssr62520 Chr6:115630956-115630963 (-) 22,636 bp
    Tssr62519 Chr6:115621488-115621519 (-) 32,092 bp
    Raf1 is Candidate Gene for:
    QTL Genetic Location* Genome Location (GRCm39) Reference QTL Note
    Cia3 Chr6, 52.75 cM Chr6:113324286-113324483 J:81372 Microarray gene expression analysis was used to identify candidate genes for QTLs associated with collagen-induced arthritis. RNA from inflamed paws of collagen-treated mice were used in the microarray analysis and compared to RNA from normal paws. 223 genes showed a four-fold or greater expression difference between inflamed and normal paws. Nine of these genes are located near previously identified arthritis severity/susceptibility QTLs and may be considered for candidates. For Cia1 on mouse Chromosome 17 (18.6 cM near the H2 locus) differential expression was observed for H2-Eb1 (18.66 cM) and H2-T23 (19.73 cM). For Cia2 and Cia4 on mouse Chromosome 2 (both are located at 34 cM) differential expression was observed for Fap (36 cM) and Gcg (36 cM). For Cia3 (48.7 cM) and Cia6 (30 cM) on mouse Chromosome 6 differential expression was observed for Raf1 (52.5 cM) and Slc6a6 (38.2 cM), respectively. For Cia5 (40 cM) on mouse Chromosome 4 differential expression was observed for Ctsk (47.9 cM) and Cd53(50.5 cM). For Cia8 (40.4 cM) on mouse Chromosome 10 differential expression was observed for Bsg (42.4 cM).
    Cia6 Chr6, 32.53 cM Chr6:4464884-87403016 J:81372 Microarray gene expression analysis was used to identify candidate genes for QTLs associated with collagen-induced arthritis. RNA from inflamed paws of collagen-treated mice were used in the microarray analysis and compared to RNA from normal paws. 223 genes showed a four-fold or greater expression difference between inflamed and normal paws. Nine of these genes are located near previously identified arthritis severity/susceptibility QTLs and may be considered for candidates. For Cia1 on mouse Chromosome 17 (18.6 cM near the H2 locus) differential expression was observed for H2-Eb1 (18.66 cM) and H2-T23 (19.73 cM). For Cia2 and Cia4 on mouse Chromosome 2 (both are located at 34 cM) differential expression was observed for Fap (36 cM) and Gcg (36 cM). For Cia3 (48.7 cM) and Cia6 (30 cM) on mouse Chromosome 6 differential expression was observed for Raf1 (52.5 cM) and Slc6a6 (38.2 cM), respectively. For Cia5 (40 cM) on mouse Chromosome 4 differential expression was observed for Ctsk (47.9 cM) and Cd53(50.5 cM). For Cia8 (40.4 cM) on mouse Chromosome 10 differential expression was observed for Bsg (42.4 cM).
    *cM position of peak correlated region/marker
    Contributing Projects:
    Mouse Genome Database (MGD), Gene Expression Database (GXD), Mouse Models of Human Cancer database (MMHCdb) (formerly Mouse Tumor Biology (MTB)), Gene Ontology (GO)
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    Send questions and comments to User Support. last database update
    10/07/2025
    MGI 6.24 The Jackson Laboratory
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