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FLYWCH1 FLYWCH-type zinc finger 1 [ Homo sapiens (human) ]

Gene ID: 84256, updated on 3-Apr-2024

Summary

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Official Symbol
FLYWCH1provided by HGNC
Official Full Name
FLYWCH-type zinc finger 1provided by HGNC
Primary source
HGNC:HGNC:25404
See related
Ensembl:ENSG00000059122 MIM:620431; AllianceGenome:HGNC:25404
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
Predicted to enable DNA binding activity and metal ion binding activity. Located in cytosol and nuclear body. [provided by Alliance of Genome Resources, Apr 2022]
Expression
Ubiquitous expression in spleen (RPKM 6.6), ovary (RPKM 5.2) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
16p13.3
Exon count:
16
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 16 NC_000016.10 (2911931..2951208)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 16 NC_060940.1 (2938537..2977878)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 16 NC_000016.9 (2961932..3001209)

Chromosome 16 - NC_000016.10Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC101929566 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10284 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10285 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10286 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:2932133-2932633 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7077 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7078 Neighboring gene FLYWCH family member 2 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7079 Neighboring gene H3K27ac hESC enhancer GRCh37_chr16:2955125-2955625 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7081 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7082 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7083 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7084 Neighboring gene ReSE screen-validated silencer GRCh37_chr16:2962376-2962565 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:2974631-2975496 Neighboring gene ribosomal protein L23a pseudogene 86 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr16:2978151-2978660 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:2988192-2988805 Neighboring gene uncharacterized LOC105371055 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3005307-3006228 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3006229-3007148 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 10287 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3011513-3012510 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3012511-3013508 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7088 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7089 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3015093-3016052 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr16:3018331-3019320 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7092 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7093 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7094 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 7095 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr16:3021603-3022419 Neighboring gene kringle containing transmembrane protein 2 Neighboring gene progestin and adipoQ receptor family member 4 Neighboring gene protein kinase, membrane associated tyrosine/threonine 1

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. Off-the-shelf proximity biotinylation for interaction proteomics. Santos-Barriopedro I, et al. Nat Commun, 2021 Aug 18. PMID 34408139, Free PMC Article
  2. Increased FLYWCH1 Expression is Negatively Correlated with Wnt/β-catenin Target Gene Expression in Acute Myeloid Leukemia Cells. Almars A, et al. Int J Mol Sci, 2019 Jun 4. PMID 31167387, Free PMC Article
  3. FLYWCH1, a Novel Suppressor of Nuclear β-Catenin, Regulates Migration and Morphology in Colorectal Cancer. Muhammad BA, et al. Mol Cancer Res, 2018 Dec. PMID 30097457, Free PMC Article
  4. Genetic Complexity of Mitral Valve Prolapse Revealed by Clinical and Genetic Evaluation of a Large Family. Haskell GT, et al. J Heart Valve Dis, 2017 Sep. PMID 29762926, Free PMC Article
  5. Expression quantitative trait Loci acting across multiple tissues are enriched in inherited risk for coronary artery disease. Foroughi Asl H, et al. Circ Cardiovasc Genet, 2015 Apr. PMID 25578447

See all (31) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. FLYWCH1, a Multi-Functional Zinc Finger Protein Contributes to the DNA Repair Pathway.
    Title: FLYWCH1, a Multi-Functional Zinc Finger Protein Contributes to the DNA Repair Pathway.
  2. we identify for the first time FLYWCH1 as a potential negative regulator of the downstream targets of the Wnt/beta-catenin pathway in AML cells. Hence, FLYWCH1 might be an intrinsic inhibitory factor of the oncogenic nuclear beta-catenin in AML cells.
    Title: Increased FLYWCH1 Expression is Negatively Correlated with Wnt/β-catenin Target Gene Expression in Acute Myeloid Leukemia Cells.
  3. Study uncovers a new molecular mechanism by which FLYWCH1 with a possible tumor suppressive role represses beta-catenin-induced ZEB1 and increases cadherin-mediated cell attachment preventing colorectal cancer metastasis.
    Title: FLYWCH1, a Novel Suppressor of Nuclear β-Catenin, Regulates Migration and Morphology in Colorectal Cancer.
  4. FLYWCH1 variant of uncertain significance in candidate gene was identified in Familial Mitral Valve Prolapse.
    Title: Genetic Complexity of Mitral Valve Prolapse Revealed by Clinical and Genetic Evaluation of a Large Family.
  5. eQTLs acting across multiple tissues are significant carriers of inherited risk for CAD. FLYWCH1, PSORSIC3, and G3BP1 are novel master regulatory genes in CAD that may be suitable targets.
    Title: Expression quantitative trait Loci acting across multiple tissues are enriched in inherited risk for coronary artery disease.
  6. Identifies the human FLYWCH1 protein (AB046772/KIAA1552) as containing five FLYWCH domain copies.
    Title: Evolution of the trans-splicing Drosophila locus mod(mdg4) in several species of Diptera and Lepidoptera.
Submit: New GeneRIF Correction

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription coactivator binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables transcription corepressor activity IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in DNA damage response IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in negative regulation of transcription by RNA polymerase II IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytosol IDA
Inferred from Direct Assay
more info
  
located_in nuclear body IDA
Inferred from Direct Assay
more info
 PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
  
part_of pericentric heterochromatin IDA
Inferred from Direct Assay
more info
 PubMed 
part_of transcription regulator complex IMP
Inferred from Mutant Phenotype
more info
 PubMed 

General protein information

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Preferred Names
FLYWCH-type zinc finger-containing protein 1

NCBI Reference Sequences (RefSeq)

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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_001308068.2 → NP_001294997.1  FLYWCH-type zinc finger-containing protein 1 isoform c

    See identical proteins and their annotated locations for NP_001294997.1

    Status: VALIDATED

    Description
    Transcript Variant: This variant (3) uses an alternate splice site in the 3' coding region compared to variant 1. The encoded isoform (c) is longer than isoform a.
    Source sequence(s)
    AC004034, AC004234, AC004235
    Consensus CDS
    CCDS76809.1
    UniProtKB/Swiss-Prot
    D3DUA1, Q4VC44, Q6ZSQ1, Q8WV62, Q9BQG6, Q9BUS5, Q9HCM0
    Related
    ENSP00000253928.9, ENST00000253928.14
    Conserved Domains (3) summary
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 393
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1
    pfam04500
    Location:421 → 479
    FLYWCH; FLYWCH zinc finger domain

  2. NM_020912.2 → NP_065963.1  FLYWCH-type zinc finger-containing protein 1 isoform b

    Status: VALIDATED

    Description
    Transcript Variant: This variant (2) differs in the 3' UTR and coding region compared to variant 1. The resulting isoform (b) is shorter at the C-terminus compared to isoform a.
    Source sequence(s)
    AC004034, AC004234
    UniProtKB/Swiss-Prot
    Q4VC44
    Conserved Domains (3) summary
    pfam04500
    Location:272 → 330
    FLYWCH; FLYWCH zinc finger domain
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:331 → 419
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1

  3. NM_032296.3 → NP_115672.2  FLYWCH-type zinc finger-containing protein 1 isoform a

    See identical proteins and their annotated locations for NP_115672.2

    Status: VALIDATED

    Description
    Transcript Variant: This variant (1) encodes isoform (a).
    Source sequence(s)
    AC004034, AC004234, AC004235
    Consensus CDS
    CCDS45390.1
    UniProtKB/Swiss-Prot
    Q4VC44
    Related
    ENSP00000399938.2, ENST00000416288.6
    Conserved Domains (3) summary
    pfam04500
    Location:272 → 330
    FLYWCH; FLYWCH zinc finger domain
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:331 → 419
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1

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_000016.10 Reference GRCh38.p14 Primary Assembly

    Range
    2911931..2951208
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047434780.1 → XP_047290736.1  FLYWCH-type zinc finger-containing protein 1 isoform X8

    UniProtKB/Swiss-Prot
    D3DUA1, Q4VC44, Q6ZSQ1, Q8WV62, Q9BQG6, Q9BUS5, Q9HCM0
    Conserved Domains (3) summary
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 393
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1
    pfam04500
    Location:421 → 479
    FLYWCH; FLYWCH zinc finger domain

  2. XM_047434784.1 → XP_047290740.1  FLYWCH-type zinc finger-containing protein 1 isoform X9

  3. XM_047434776.1 → XP_047290732.1  FLYWCH-type zinc finger-containing protein 1 isoform X6

  4. XM_011522703.3 → XP_011521005.1  FLYWCH-type zinc finger-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011521005.1

    Conserved Domains (3) summary
    pfam04500
    Location:273 → 331
    FLYWCH; FLYWCH zinc finger domain
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 420
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1

  5. XM_047434779.1 → XP_047290735.1  FLYWCH-type zinc finger-containing protein 1 isoform X8

    UniProtKB/Swiss-Prot
    D3DUA1, Q4VC44, Q6ZSQ1, Q8WV62, Q9BQG6, Q9BUS5, Q9HCM0
    Conserved Domains (3) summary
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 393
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1
    pfam04500
    Location:421 → 479
    FLYWCH; FLYWCH zinc finger domain

  6. XM_047434783.1 → XP_047290739.1  FLYWCH-type zinc finger-containing protein 1 isoform X9

  7. XM_006720962.4 → XP_006721025.1  FLYWCH-type zinc finger-containing protein 1 isoform X6

    See identical proteins and their annotated locations for XP_006721025.1

    UniProtKB/Swiss-Prot
    Q4VC44
    Conserved Domains (3) summary
    pfam04500
    Location:273 → 331
    FLYWCH; FLYWCH zinc finger domain
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 420
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1

  8. XM_011522701.3 → XP_011521003.1  FLYWCH-type zinc finger-containing protein 1 isoform X1

    See identical proteins and their annotated locations for XP_011521003.1

    Conserved Domains (3) summary
    pfam04500
    Location:273 → 331
    FLYWCH; FLYWCH zinc finger domain
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 420
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1

  9. XM_011522705.3 → XP_011521007.1  FLYWCH-type zinc finger-containing protein 1 isoform X4

    Conserved Domains (3) summary
    pfam04500
    Location:273 → 331
    FLYWCH; FLYWCH zinc finger domain
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 420
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1

  10. XM_047434777.1 → XP_047290733.1  FLYWCH-type zinc finger-containing protein 1 isoform X7

  11. XM_011522704.3 → XP_011521006.1  FLYWCH-type zinc finger-containing protein 1 isoform X2

    Conserved Domains (3) summary
    pfam04500
    Location:272 → 330
    FLYWCH; FLYWCH zinc finger domain
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:331 → 419
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1

  12. XM_047434774.1 → XP_047290730.1  FLYWCH-type zinc finger-containing protein 1 isoform X3

  13. XM_047434785.1 → XP_047290741.1  FLYWCH-type zinc finger-containing protein 1 isoform X10

  14. XM_047434786.1 → XP_047290742.1  FLYWCH-type zinc finger-containing protein 1 isoform X11

  15. XM_047434789.1 → XP_047290745.1  FLYWCH-type zinc finger-containing protein 1 isoform X14

  16. XM_011522707.3 → XP_011521009.1  FLYWCH-type zinc finger-containing protein 1 isoform X11

    See identical proteins and their annotated locations for XP_011521009.1

    Conserved Domains (3) summary
    pfam04500
    Location:273 → 331
    FLYWCH; FLYWCH zinc finger domain
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 420
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1

  17. XM_047434787.1 → XP_047290743.1  FLYWCH-type zinc finger-containing protein 1 isoform X12

  18. XM_047434775.1 → XP_047290731.1  FLYWCH-type zinc finger-containing protein 1 isoform X5

  19. XM_047434782.1 → XP_047290738.1  FLYWCH-type zinc finger-containing protein 1 isoform X9

  20. XM_047434781.1 → XP_047290737.1  FLYWCH-type zinc finger-containing protein 1 isoform X8

    UniProtKB/Swiss-Prot
    D3DUA1, Q4VC44, Q6ZSQ1, Q8WV62, Q9BQG6, Q9BUS5, Q9HCM0
    Conserved Domains (3) summary
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 393
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1
    pfam04500
    Location:421 → 479
    FLYWCH; FLYWCH zinc finger domain

  21. XM_047434778.1 → XP_047290734.1  FLYWCH-type zinc finger-containing protein 1 isoform X8

    UniProtKB/Swiss-Prot
    D3DUA1, Q4VC44, Q6ZSQ1, Q8WV62, Q9BQG6, Q9BUS5, Q9HCM0
    Conserved Domains (3) summary
    pfam15423
    Location:1 → 107
    FLYWCH_N; FLYWCH-type zinc finger-containing protein
    pfam16662
    Location:332 → 393
    FLYWCH_u; FLYWCH-type zinc finger-containing protein 1
    pfam04500
    Location:421 → 479
    FLYWCH; FLYWCH zinc finger domain

  22. XM_047434788.1 → XP_047290744.1  FLYWCH-type zinc finger-containing protein 1 isoform X13

  23. XM_047434790.1 → XP_047290746.1  FLYWCH-type zinc finger-containing protein 1 isoform X15

  24. XM_047434791.1 → XP_047290747.1  FLYWCH-type zinc finger-containing protein 1 isoform X16

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060940.1 Alternate T2T-CHM13v2.0

    Range
    2938537..2977878
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054314171.1 → XP_054170146.1  FLYWCH-type zinc finger-containing protein 1 isoform X8

    UniProtKB/Swiss-Prot
    D3DUA1, Q4VC44, Q6ZSQ1, Q8WV62, Q9BQG6, Q9BUS5, Q9HCM0

  2. XM_054314175.1 → XP_054170150.1  FLYWCH-type zinc finger-containing protein 1 isoform X9

  3. XM_054314167.1 → XP_054170142.1  FLYWCH-type zinc finger-containing protein 1 isoform X6

  4. XM_054314160.1 → XP_054170135.1  FLYWCH-type zinc finger-containing protein 1 isoform X1

  5. XM_054314170.1 → XP_054170145.1  FLYWCH-type zinc finger-containing protein 1 isoform X8

    UniProtKB/Swiss-Prot
    D3DUA1, Q4VC44, Q6ZSQ1, Q8WV62, Q9BQG6, Q9BUS5, Q9HCM0

  6. XM_054314174.1 → XP_054170149.1  FLYWCH-type zinc finger-containing protein 1 isoform X9

  7. XM_054314166.1 → XP_054170141.1  FLYWCH-type zinc finger-containing protein 1 isoform X6

  8. XM_054314159.1 → XP_054170134.1  FLYWCH-type zinc finger-containing protein 1 isoform X1

  9. XM_054314163.1 → XP_054170138.1  FLYWCH-type zinc finger-containing protein 1 isoform X17

  10. XM_054314164.1 → XP_054170139.1  FLYWCH-type zinc finger-containing protein 1 isoform X4

  11. XM_054314168.1 → XP_054170143.1  FLYWCH-type zinc finger-containing protein 1 isoform X7

  12. XM_054314161.1 → XP_054170136.1  FLYWCH-type zinc finger-containing protein 1 isoform X2

  13. XM_054314162.1 → XP_054170137.1  FLYWCH-type zinc finger-containing protein 1 isoform X3

  14. XM_054314176.1 → XP_054170151.1  FLYWCH-type zinc finger-containing protein 1 isoform X10

  15. XM_054314177.1 → XP_054170152.1  FLYWCH-type zinc finger-containing protein 1 isoform X11

  16. XM_054314181.1 → XP_054170156.1  FLYWCH-type zinc finger-containing protein 1 isoform X14

  17. XM_054314178.1 → XP_054170153.1  FLYWCH-type zinc finger-containing protein 1 isoform X11

  18. XM_054314180.1 → XP_054170155.1  FLYWCH-type zinc finger-containing protein 1 isoform X12

  19. XM_054314165.1 → XP_054170140.1  FLYWCH-type zinc finger-containing protein 1 isoform X5

  20. XM_054314173.1 → XP_054170148.1  FLYWCH-type zinc finger-containing protein 1 isoform X9

  21. XM_054314172.1 → XP_054170147.1  FLYWCH-type zinc finger-containing protein 1 isoform X8

    UniProtKB/Swiss-Prot
    D3DUA1, Q4VC44, Q6ZSQ1, Q8WV62, Q9BQG6, Q9BUS5, Q9HCM0

  22. XM_054314169.1 → XP_054170144.1  FLYWCH-type zinc finger-containing protein 1 isoform X8

    UniProtKB/Swiss-Prot
    D3DUA1, Q4VC44, Q6ZSQ1, Q8WV62, Q9BQG6, Q9BUS5, Q9HCM0

  23. XM_054314179.1 → XP_054170154.1  FLYWCH-type zinc finger-containing protein 1 isoform X13

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q4VC44.2 GenPept UniProtKB/Swiss-Prot:Q4VC44

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