U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

Links from MedGen

    • Showing Current items.

    CFAP410 cilia and flagella associated protein 410 [ Homo sapiens (human) ]

    Gene ID: 755, updated on 17-Jun-2024

    Summary

    Official Symbol
    CFAP410provided by HGNC
    Official Full Name
    cilia and flagella associated protein 410provided by HGNC
    Primary source
    HGNC:HGNC:1260
    See related
    Ensembl:ENSG00000160226 MIM:603191; AllianceGenome:HGNC:1260
    Gene type
    protein coding
    RefSeq status
    REVIEWED
    Organism
    Homo sapiens
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
    Also known as
    RDMS; SMDAX; LRRC76; YF5/A2; C21orf2
    Summary
    Four alternatively spliced transcript variants encoding four different isoforms have been found for this nuclear gene. All isoforms contain leucine-rich repeats. Three of these isoforms are mitochondrial proteins and one of them lacks the target peptide, so is not located in mitochondrion. This gene is down-regulated in Down syndrome (DS) brain, which may represent mitochondrial dysfunction in DS patients. [provided by RefSeq, Sep 2012]
    Expression
    Ubiquitous expression in kidney (RPKM 7.1), spleen (RPKM 5.4) and 25 other tissues See more
    Orthologs
    NEW
    Try the new Gene table
    Try the new Transcript table

    Genomic context

    See CFAP410 in Genome Data Viewer
    Location:
    21q22.3
    Exon count:
    9
    Annotation release Status Assembly Chr Location
    RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 21 NC_000021.9 (44328944..44339390, complement)
    RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 21 NC_060945.1 (42683001..42693484, complement)
    105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 21 NC_000021.8 (45748827..45759273, complement)

    Chromosome 21 - NC_000021.9Genomic Context describing neighboring genes Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13378 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18565 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18566 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18567 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13379 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13380 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18568 Neighboring gene autoimmune regulator Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45724667-45725466 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45725506-45726160 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45726161-45726814 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45727470-45728123 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13381 Neighboring gene phosphofructokinase, liver type Neighboring gene Sharpr-MPRA regulatory region 3786 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18569 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45751251-45751752 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45751753-45752252 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13382 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18570 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 13383 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr21:45761314-45761956 Neighboring gene NANOG-H3K27ac hESC enhancer GRCh37_chr21:45761957-45762600 Neighboring gene NANOG hESC enhancer GRCh37_chr21:45763343-45763898 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45765021-45765523 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18571 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18572 Neighboring gene transient receptor potential cation channel subfamily M member 2 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr21:45790067-45790900 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45797213-45797712 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45797713-45798214 Neighboring gene ReSE screen-validated silencer GRCh37_chr21:45798708-45798913 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45821987-45822910 Neighboring gene CDK7 strongly-dependent group 2 enhancer GRCh37_chr21:45825427-45826626 Neighboring gene TRPM2 antisense RNA Neighboring gene ATAC-STARR-seq lymphoblastoid active region 18573 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45846369-45847280 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45847281-45848192 Neighboring gene Z6 small nucleolar RNA Neighboring gene H3K4me1 hESC enhancer GRCh37_chr21:45857057-45857556

    Genomic regions, transcripts, and products

    Expression

    • Project title: HPA RNA-seq normal tissues
    • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
    • BioProject: PRJEB4337
    • Publication: PMID 24309898
    • Analysis date: Wed Apr 4 07:08:55 2018

    Bibliography

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?

    Pathways from PubChem

    Interactions

    Products Interactant Other Gene Complex Source Pubs Description

    General gene information

    Markers

    Clone Names

    • AP001062.8

    Gene Ontology Provided by GOA

    Function Evidence Code Pubs
    enables molecular_function ND
    No biological Data available
    more info
     
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    PubMed 
    Process Evidence Code Pubs
    involved_in DNA damage response IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cilium assembly IEA
    Inferred from Electronic Annotation
    more info
     
    involved_in cytoskeleton organization IBA
    Inferred from Biological aspect of Ancestor
    more info
     
    involved_in cytoskeleton organization IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in regulation of cell shape IMP
    Inferred from Mutant Phenotype
    more info
    PubMed 
    involved_in smoothened signaling pathway IEA
    Inferred from Electronic Annotation
    more info
     
    Component Evidence Code Pubs
    located_in ciliary basal body IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytoplasm IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in cytosol IDA
    Inferred from Direct Assay
    more info
     
    located_in intracellular membrane-bounded organelle IDA
    Inferred from Direct Assay
    more info
     
    located_in mitochondrion IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in photoreceptor connecting cilium ISS
    Inferred from Sequence or Structural Similarity
    more info
     
    located_in photoreceptor outer segment IDA
    Inferred from Direct Assay
    more info
    PubMed 
    located_in plasma membrane IDA
    Inferred from Direct Assay
    more info
    PubMed 

    General protein information

    Preferred Names
    cilia- and flagella-associated protein 410; nuclear encoded mitochondrial protein C21orf2
    Names
    C21orf-HUMF09G8.5
    leucine rich repeat containing 76
    leucine-rich repeat-containing protein 76
    protein C21orf2

    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.

    Genomic

    1. NG_032952.1 RefSeqGene

      Range
      5013..15459
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NM_001271440.2NP_001258369.1  nuclear encoded mitochondrial protein C21orf2 isoform 2

      See identical proteins and their annotated locations for NP_001258369.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (2) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The resulting isoform (2, also known as YF5) lacks an internal aa, compared to isoform 1.
      Source sequence(s)
      BM761336, U84569, Y11392
      Consensus CDS
      CCDS59445.1
      Related
      ENSP00000317302.7, ENST00000325223.7
      Conserved Domains (4) summary
      smart00446
      Location:104122
      LRRcap; occurring C-terminal to leucine-rich repeats
      sd00035
      Location:4263
      LRR_NTF; leucine-rich repeat [structural motif]
      pfam12799
      Location:4080
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:1974
      LRR_8; Leucine rich repeat
    2. NM_001271441.2NP_001258370.1  nuclear encoded mitochondrial protein C21orf2 isoform 3

      See identical proteins and their annotated locations for NP_001258370.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (3) uses an alternate in-frame splice site in the 3' coding region, compared to variant 1. The resulting isoform (3) has an additional segment in the C-terminal region, compared to isoform 1.
      Source sequence(s)
      BC031300, Y11392
      Consensus CDS
      CCDS59444.1
      UniProtKB/Swiss-Prot
      O43822
      Related
      ENSP00000381047.3, ENST00000397956.7
      Conserved Domains (4) summary
      smart00446
      Location:104122
      LRRcap; occurring C-terminal to leucine-rich repeats
      sd00035
      Location:4263
      LRR_NTF; leucine-rich repeat [structural motif]
      pfam12799
      Location:4080
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:1974
      LRR_8; Leucine rich repeat
    3. NM_001271442.1NP_001258371.1  cilia- and flagella-associated protein 410 isoform 4

      Status: REVIEWED

      Description
      Transcript Variant: This variant (4) has an alternate 5' exon and an additional exon in the 5' region, which cause translation initiation at a downstream AUG, compared to variant 1. The resulting isoform (4, also known as A2) is shorter and lacks a mitochondrial targeting peptide, compared to isoform 1.
      Source sequence(s)
      AP001062, BC031300, U84570, Y11392
      Conserved Domains (3) summary
      smart00446
      Location:6381
      LRRcap; occurring C-terminal to leucine-rich repeats
      sd00035
      Location:2346
      LRR_NTF; leucine-rich repeat [structural motif]
      pfam12799
      Location:239
      LRR_4; Leucine Rich repeats (2 copies)
    4. NM_004928.3NP_004919.1  nuclear encoded mitochondrial protein C21orf2 isoform 1

      See identical proteins and their annotated locations for NP_004919.1

      Status: REVIEWED

      Description
      Transcript Variant: This variant (1) encodes a mitochondrial protein (isoform 1).
      Source sequence(s)
      BC072012, BM761336, Y11392
      Consensus CDS
      CCDS13709.1
      UniProtKB/Swiss-Prot
      A8MPS9, O14993, O43822, Q8N5X6, Q99837, Q99838
      Related
      ENSP00000344566.4, ENST00000339818.9
      Conserved Domains (4) summary
      smart00446
      Location:104122
      LRRcap; occurring C-terminal to leucine-rich repeats
      sd00035
      Location:4263
      LRR_NTF; leucine-rich repeat [structural motif]
      pfam12799
      Location:4080
      LRR_4; Leucine Rich repeats (2 copies)
      pfam13855
      Location:1974
      LRR_8; Leucine rich repeat

    RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

    Reference GRCh38.p14 Primary Assembly

    Genomic

    1. NC_000021.9 Reference GRCh38.p14 Primary Assembly

      Range
      44328944..44339390 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_047440986.1XP_047296942.1  nuclear encoded mitochondrial protein C21orf2 isoform X6

    2. XM_047440982.1XP_047296938.1  nuclear encoded mitochondrial protein C21orf2 isoform X3

    3. XM_047440981.1XP_047296937.1  nuclear encoded mitochondrial protein C21orf2 isoform X2

    4. XM_047440980.1XP_047296936.1  nuclear encoded mitochondrial protein C21orf2 isoform X1

    5. XM_047440983.1XP_047296939.1  nuclear encoded mitochondrial protein C21orf2 isoform X5

    6. XM_006724051.4XP_006724114.1  nuclear encoded mitochondrial protein C21orf2 isoform X4

      Conserved Domains (3) summary
      smart00446
      Location:129147
      LRRcap; occurring C-terminal to leucine-rich repeats
      sd00035
      Location:89112
      LRR_NTF; leucine-rich repeat [structural motif]
      pfam12799
      Location:87123
      LRR_4; Leucine Rich repeats (2 copies)
    7. XM_047440987.1XP_047296943.1  nuclear encoded mitochondrial protein C21orf2 isoform X7

    8. XM_047440984.1XP_047296940.1  nuclear encoded mitochondrial protein C21orf2 isoform X6

    9. XM_047440985.1XP_047296941.1  nuclear encoded mitochondrial protein C21orf2 isoform X6

    Alternate T2T-CHM13v2.0

    Genomic

    1. NC_060945.1 Alternate T2T-CHM13v2.0

      Range
      42683001..42693484 complement
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_054324849.1XP_054180824.1  nuclear encoded mitochondrial protein C21orf2 isoform X6

    2. XM_054324844.1XP_054180819.1  nuclear encoded mitochondrial protein C21orf2 isoform X3

    3. XM_054324843.1XP_054180818.1  nuclear encoded mitochondrial protein C21orf2 isoform X2

    4. XM_054324842.1XP_054180817.1  nuclear encoded mitochondrial protein C21orf2 isoform X1

    5. XM_054324846.1XP_054180821.1  nuclear encoded mitochondrial protein C21orf2 isoform X5

    6. XM_054324845.1XP_054180820.1  nuclear encoded mitochondrial protein C21orf2 isoform X4

    7. XM_054324850.1XP_054180825.1  nuclear encoded mitochondrial protein C21orf2 isoform X7

    8. XM_054324847.1XP_054180822.1  nuclear encoded mitochondrial protein C21orf2 isoform X6

    9. XM_054324848.1XP_054180823.1  nuclear encoded mitochondrial protein C21orf2 isoform X6