Format

Send to:

Choose Destination

IFFO1 intermediate filament family orphan 1 [ Homo sapiens (human) ]

Gene ID: 25900, updated on 21-Dec-2019

Summary

Official Symbol
IFFO1provided by HGNC
Official Full Name
intermediate filament family orphan 1provided by HGNC
Primary source
HGNC:HGNC:24970
See related
Ensembl:ENSG00000010295 MIM:610495
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
IFFO; HOM-TES-103
Summary
This gene is a member of the intermediate filament family. Intermediate filaments are proteins which are primordial components of the cytoskeleton and nuclear envelope. The proteins encoded by the members of this gene family are evolutionarily and structurally related but have limited sequence homology, with the exception of the central rod domain. Multiple alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2010]
Expression
Ubiquitous expression in spleen (RPKM 12.7), lymph node (RPKM 8.2) and 24 other tissues See more
Orthologs

Genomic context

See IFFO1 in Genome Data Viewer
Location:
12p13.31
Exon count:
13
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) 12 NC_000012.12 (6538961..6556097, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (6648694..6665249, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene non-SMC condensin I complex subunit D2 Neighboring gene uncharacterized LOC112268089 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase Neighboring gene NOP2 nucleolar protein Neighboring gene Sharpr-MPRA regulatory region 3501 Neighboring gene chromodomain helicase DNA binding protein 4

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

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ20703, MGC117359, DKFZp586I2223

Gene Ontology Provided by GOA

Component Evidence Code Pubs
intermediate filament IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
intermediate filament family orphan 1
Names
intermediate filament-like MGC:2625

NCBI Reference Sequences (RefSeq)

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_001039670.3NP_001034759.1  intermediate filament family orphan 1 isoform 4

    See identical proteins and their annotated locations for NP_001034759.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate in-frame splice site in the central coding region, compared to variant 2, resulting in an isoform (4) that is 1 aa longer than isoform 2.
    Source sequence(s)
    AC006064, AI969315, BC002857, BC063004, BC110387
    Consensus CDS
    CCDS41741.1
    UniProtKB/Swiss-Prot
    Q0D2I5
    UniProtKB/TrEMBL
    Q6P593
    Related
    ENSP00000349364.4, ENST00000356896.8
    Conserved Domains (1) summary
    pfam00038
    Location:230522
    Filament; Intermediate filament protein
  2. NM_001193457.1NP_001180386.1  intermediate filament family orphan 1 isoform 5

    See identical proteins and their annotated locations for NP_001180386.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (5) uses two alternate in-frame splice sites in the central coding region, compared to variant 2, resulting in an isoform (5) that is longer than isoform 2.
    Source sequence(s)
    AI423929, AK298905, AL080214, BC063004, DA744744, DA969856
    Consensus CDS
    CCDS73425.1
    UniProtKB/TrEMBL
    A0A087WZ16, B4DQQ1, Q6P593, Q9Y4M3
    Related
    ENSP00000482285.1, ENST00000619571.4
    Conserved Domains (1) summary
    pfam00038
    Location:230530
    Filament; Intermediate filament protein
  3. NM_001330324.2NP_001317253.1  intermediate filament family orphan 1 isoform 7

    Status: REVIEWED

    Description
    Transcript Variant: This variant (8) lacks an alternate in-frame exon in the central coding region, compared to variant 2, resulting in an isoform (7) that is 3 aa shorter than isoform 2.
    Source sequence(s)
    AA251428, AC006064, AF124432, AL548672, BC001790, BM147696, DN997252
    Consensus CDS
    CCDS81655.1
    UniProtKB/Swiss-Prot
    Q0D2I5
    Related
    ENSP00000380052.2, ENST00000396840.6
  4. NM_001330325.2NP_001317254.1  intermediate filament family orphan 1 isoform 8

    Status: REVIEWED

    Description
    Transcript Variant: This variant (9) uses an alternate in-frame splice site in the central coding region, compared to variant 2, resulting in an isoform (8) that is 1 aa shorter than isoform 2.
    Source sequence(s)
    AA251428, AC006064, AF124432, AL548672, BC001790, BE410988, BM147696
    Conserved Domains (1) summary
    pfam00038
    Location:230520
    Filament; Intermediate filament protein
  5. NM_080730.5NP_542768.2  intermediate filament family orphan 1 isoform 2

    See identical proteins and their annotated locations for NP_542768.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) encodes isoform 2.
    Source sequence(s)
    AA251428, AC006064, AF124432, AL548672, BC001790, BM147696
    Consensus CDS
    CCDS8550.2
    UniProtKB/Swiss-Prot
    Q0D2I5
    Related
    ENSP00000337593.4, ENST00000336604.8
    Conserved Domains (1) summary
    pfam00038
    Location:230521
    Filament; Intermediate filament protein

RNA

  1. NR_036467.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (7) includes an additional internal exon in the 5' region and uses an alternate splice site in the central region, compared to variant 2. This variant is represented as non-coding because the use of the supported translational start codon, as used in variant 2, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AA251428, AC006064, BC001790
    Related
    ENST00000487279.6

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000012.12 Reference GRCh38.p13 Primary Assembly

    Range
    6538961..6556097 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006718976.4XP_006719039.1  intermediate filament family orphan 1 isoform X7

    See identical proteins and their annotated locations for XP_006719039.1

    Conserved Domains (1) summary
    pfam00038
    Location:230519
    Filament; Intermediate filament protein
  2. XM_011520949.3XP_011519251.1  intermediate filament family orphan 1 isoform X3

    Conserved Domains (1) summary
    pfam00038
    Location:537607
    Filament; Intermediate filament protein
  3. XM_006718975.4XP_006719038.1  intermediate filament family orphan 1 isoform X6

    See identical proteins and their annotated locations for XP_006719038.1

    UniProtKB/Swiss-Prot
    Q0D2I5
    Conserved Domains (1) summary
    pfam00038
    Location:230521
    Filament; Intermediate filament protein
  4. XM_011520948.3XP_011519250.1  intermediate filament family orphan 1 isoform X2

    Conserved Domains (1) summary
    pfam00038
    Location:539609
    Filament; Intermediate filament protein
  5. XM_011520947.3XP_011519249.1  intermediate filament family orphan 1 isoform X1

    Conserved Domains (1) summary
    pfam00038
    Location:540610
    Filament; Intermediate filament protein
  6. XM_017019170.1XP_016874659.1  intermediate filament family orphan 1 isoform X5

  7. XM_017019173.1XP_016874662.1  intermediate filament family orphan 1 isoform X10

  8. XM_006718981.3XP_006719044.1  intermediate filament family orphan 1 isoform X11

    Related
    ENSP00000436261.1, ENST00000465801.5
    Conserved Domains (1) summary
    pfam00038
    Location:147214
    Filament; Intermediate filament protein
  9. XM_011520952.2XP_011519254.1  intermediate filament family orphan 1 isoform X9

    Conserved Domains (1) summary
    pfam00038
    Location:232302
    Filament; Intermediate filament protein
  10. XM_017019172.1XP_016874661.1  intermediate filament family orphan 1 isoform X8

  11. XM_017019169.2XP_016874658.1  intermediate filament family orphan 1 isoform X4

Suppressed Reference Sequence(s)

The following Reference Sequences have been suppressed. Explain

  1. NM_001193459.1: Suppressed sequence

    Description
    NM_001193459.1: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
  2. NM_015438.1: Suppressed sequence

    Description
    NM_015438.1: This RefSeq was permanently suppressed because it is a nonsense-mediated mRNA decay (NMD) candidate.
  3. NM_080731.3: Suppressed sequence

    Description
    NM_080731.3: This RefSeq was permanently suppressed because currently there is support for the transcript but not for the protein.
Support Center