U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from GEO Profiles

    • Showing Current items.

    Carf calcium response factor [ Mus musculus (house mouse) ]

    Gene ID: 241066, updated on 9-Dec-2024

    Summary

    Official Symbol
    Carfprovided by MGI
    Official Full Name
    calcium response factorprovided by MGI
    Primary source
    MGI:MGI:2182269
    See related
    Ensembl:ENSMUSG00000026017 AllianceGenome:MGI:2182269
    Gene type
    protein coding
    RefSeq status
    VALIDATED
    Organism
    Mus musculus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
    Also known as
    Als2cr8; ECBRC-FC1; ECBRC-FC2
    Summary
    Enables DNA-binding transcription activator activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Involved in positive regulation of transcription by RNA polymerase II. Acts upstream of or within regulation of DNA-binding transcription factor activity. Located in granular component. Is expressed in several structures, including central nervous system; eye; genitourinary system; gut; and skeletal muscle tissue. Orthologous to human CARF (calcium responsive transcription factor). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Broad expression in testis adult (RPKM 2.5), CNS E18 (RPKM 1.9) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See Carf in Genome Data Viewer
    Location:
    1 C2; 1 30.45 cM
    Exon count:
    18
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCm39 (GCF_000001635.27) 1 NC_000067.7 (60137380..60193112)
    108.20200622 previous assembly GRCm38.p6 (GCF_000001635.26) 1 NC_000067.6 (60098221..60153953)

    Chromosome 1 - NC_000067.7Genomic Context describing neighboring genes Neighboring gene family with sequence similarity 117, member B Neighboring gene arginyl-tRNA synthetase 2, mitochondrial pseudogene Neighboring gene STARR-positive B cell enhancer mm9_chr1:60073097-60073398 Neighboring gene islet cell autoantigen 1-like Neighboring gene STARR-seq mESC enhancer starr_01058 Neighboring gene STARR-seq mESC enhancer starr_01059 Neighboring gene CapStarr-seq enhancer MGSCv37_chr1:60154934-60155145 Neighboring gene WD repeat domain 12 Neighboring gene predicted gene 15464 Neighboring gene STARR-seq mESC enhancer starr_01061 Neighboring gene neurobeachin like 1 Neighboring gene STARR-positive B cell enhancer mm9_chr1:60297214-60297515 Neighboring gene STARR-seq mESC enhancer starr_01062 Neighboring gene STARR-seq mESC enhancer starr_01063 Neighboring gene protein (peptidyl-prolyl cis/trans isomerase) NIMA-interacting, 4 (parvulin) pseudogene Neighboring gene STARR-seq mESC enhancer starr_01064 Neighboring gene STARR-seq mESC enhancer starr_01065 Neighboring gene cytochrome P450, family 20, subfamily a, polypeptide 1

    Genomic regions, transcripts, and products

    Expression

    • Project title: Mouse ENCODE transcriptome data
    • Description: RNA profiling data sets generated by the Mouse ENCODE project.
    • BioProject: PRJNA66167
    • Publication: PMID 25409824
    • Analysis date: n/a

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Variation

    Alleles

    Alleles of this type are documented at Mouse Genome Informatics  (MGI)

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Gene Ontology Provided by MGI

    Component Evidence Code Pubs
    located_in granular component IDA
    Inferred from Direct Assay
    more info
    PubMed 
    is_active_in nucleus IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    located_in nucleus IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
     

    General protein information

    Preferred Names
    calcium-responsive transcription factor
    Names
    amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8 protein homolog
    calcium-response factor CaRF

    NCBI Reference Sequences (RefSeq)

    NEW Try the new Transcript table

    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001285463.2NP_001272392.1  calcium-responsive transcription factor isoform 2

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597
      Conserved Domains (1) summary
      pfam15299
      Location:108338
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    2. NM_001285473.2NP_001272402.1  calcium-responsive transcription factor isoform 3

      See identical proteins and their annotated locations for NP_001272402.1

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597
      Consensus CDS
      CCDS78592.1
      UniProtKB/TrEMBL
      A8VI08
      Related
      ENSMUSP00000027171.6, ENSMUST00000027171.12
      Conserved Domains (1) summary
      pfam15299
      Location:192419
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    3. NM_001431923.1NP_001418852.1  calcium-responsive transcription factor isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597
    4. NM_001431924.1NP_001418853.1  calcium-responsive transcription factor isoform 4

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597
    5. NM_001431925.1NP_001418854.1  calcium-responsive transcription factor isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597
      UniProtKB/TrEMBL
      A8VI08
    6. NM_001431926.1NP_001418855.1  calcium-responsive transcription factor isoform 3

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597
      UniProtKB/TrEMBL
      A8VI08
    7. NM_001431927.1NP_001418856.1  calcium-responsive transcription factor isoform 5

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597
    8. NM_001431928.1NP_001418857.1  calcium-responsive transcription factor isoform 6

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597
    9. NM_139150.6NP_631889.1  calcium-responsive transcription factor isoform 1

      See identical proteins and their annotated locations for NP_631889.1

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597
      Consensus CDS
      CCDS14989.1
      UniProtKB/Swiss-Prot
      B2RRZ9, Q8VHI4
      Related
      ENSMUSP00000141169.2, ENSMUST00000187978.7
      Conserved Domains (1) summary
      pfam15299
      Location:227454
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8

    RNA

    1. NR_104344.2 RNA Sequence

      Status: VALIDATED

      Source sequence(s)
      AC116581, AC138597

    RefSeqs of Annotated Genomes: GCF_000001635.27-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCm39 C57BL/6J

    Genomic

    1. NC_000067.7 Reference GRCm39 C57BL/6J

      Range
      60137380..60193112
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_030254084.1XP_030109944.1  calcium-responsive transcription factor isoform X1

      UniProtKB/Swiss-Prot
      B2RRZ9, Q8VHI4
      Conserved Domains (1) summary
      pfam15299
      Location:227454
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    2. XM_006495975.2XP_006496038.1  calcium-responsive transcription factor isoform X3

      Conserved Domains (1) summary
      pfam15299
      Location:192419
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    3. XM_036164953.1XP_036020846.1  calcium-responsive transcription factor isoform X2

      Conserved Domains (1) summary
      pfam15299
      Location:198425
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    4. XM_036164965.1XP_036020858.1  calcium-responsive transcription factor isoform X5

      Conserved Domains (1) summary
      pfam15299
      Location:166393
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    5. XM_036164962.1XP_036020855.1  calcium-responsive transcription factor isoform X4

      Conserved Domains (1) summary
      pfam15299
      Location:227406
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    6. XM_017320602.1XP_017176091.1  calcium-responsive transcription factor isoform X3

      Conserved Domains (1) summary
      pfam15299
      Location:192419
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    7. XM_030254087.1XP_030109947.1  calcium-responsive transcription factor isoform X2

      Conserved Domains (1) summary
      pfam15299
      Location:198425
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    8. XM_036164967.1XP_036020860.1  calcium-responsive transcription factor isoform X6

      Conserved Domains (1) summary
      pfam15299
      Location:11128
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    9. XM_006495977.2XP_006496040.1  calcium-responsive transcription factor isoform X5

      Conserved Domains (1) summary
      pfam15299
      Location:166393
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    10. XM_036164947.1XP_036020840.1  calcium-responsive transcription factor isoform X1

      UniProtKB/Swiss-Prot
      B2RRZ9, Q8VHI4
      Conserved Domains (1) summary
      pfam15299
      Location:227454
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    11. XM_006495974.2XP_006496037.1  calcium-responsive transcription factor isoform X3

      Conserved Domains (1) summary
      pfam15299
      Location:192419
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    12. XM_017320598.3XP_017176087.1  calcium-responsive transcription factor isoform X2

      Conserved Domains (1) summary
      pfam15299
      Location:198425
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    13. XM_036164963.1XP_036020856.1  calcium-responsive transcription factor isoform X5

      Conserved Domains (1) summary
      pfam15299
      Location:166393
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    14. XM_011238510.1XP_011236812.1  calcium-responsive transcription factor isoform X1

      See identical proteins and their annotated locations for XP_011236812.1

      UniProtKB/Swiss-Prot
      B2RRZ9, Q8VHI4
      Conserved Domains (1) summary
      pfam15299
      Location:227454
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    15. XM_036164961.1XP_036020854.1  calcium-responsive transcription factor isoform X4

      Conserved Domains (1) summary
      pfam15299
      Location:227406
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    16. XM_036164954.1XP_036020847.1  calcium-responsive transcription factor isoform X3

      UniProtKB/TrEMBL
      A8VI08
      Conserved Domains (1) summary
      pfam15299
      Location:192419
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    17. XM_036164949.1XP_036020842.1  calcium-responsive transcription factor isoform X2

      Conserved Domains (1) summary
      pfam15299
      Location:198425
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8
    18. XM_036164966.1XP_036020859.1  calcium-responsive transcription factor isoform X5

      Conserved Domains (1) summary
      pfam15299
      Location:166393
      ALS2CR8; Amyotrophic lateral sclerosis 2 chromosomal region candidate gene 8

    RNA

    1. XR_001784597.3 RNA Sequence

    2. XR_004942477.1 RNA Sequence

    3. XR_004942486.1 RNA Sequence