Ankrd27 ankyrin repeat domain 27 [Mus musculus (house mouse)] - Gene

Summary

Official Symbol: Ankrd27provided by MGI
Official Full Name: ankyrin repeat domain 27provided by MGI
Primary source: MGI:MGI:2444103
See related: Ensembl:ENSMUSG00000034867 AllianceGenome:MGI:2444103
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: Varp; D330003H11Rik
Summary: Enables SNARE binding activity and small GTPase binding activity. Involved in endosome to melanosome transport; neuron projection morphogenesis; and positive regulation of dendrite morphogenesis. Located in melanosome; neuron projection; and transport vesicle. Is expressed in several structures, including genitourinary system; liver; lung; spleen; and stomach. Human ortholog(s) of this gene implicated in eosinophilic esophagitis. Orthologous to human ANKRD27 (ankyrin repeat domain 27). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Ubiquitous expression in limb E14.5 (RPKM 10.8), bladder adult (RPKM 7.7) and 28 other tissues See more
Orthologs: human all
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Genomic context

Location:: 7 B2; 7 21.37 cM

Exon count:: 29

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCm39 (GCF_000001635.27)	7	NC_000073.7 (35285652..35338662)
108.20200622	previous assembly	GRCm38.p6 (GCF_000001635.26)	7	NC_000073.6 (35586226..35639237)

Chromosome 7 - NC_000073.7 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

RACK1 competes with Rab40C for binding to the ANKR2 domain of Varp and regulates dendrite outgrowth through stabilization of Varp in mouse melanocytes
Title: A Varp-Binding Protein, RACK1, Regulates Dendrite Outgrowth through Stabilization of Varp Protein in Mouse Melanocytes.
both the Rab32/38 binding activity and VAMP7 binding activity of Varp are essential for trafficking of Tyrp1 in melanocytes but activation of Rab21 by the VPS9 domain is not necessary for Tyrp1 trafficking
Title: Structure-function analysis of VPS9-ankyrin-repeat protein (Varp) in the trafficking of tyrosinase-related protein 1 in melanocytes.
Varp functions as the Rab32/38 effector that controls trafficking of Tyrp1 in melanocytes.
Title: Varp is a novel Rab32/38-binding protein that regulates Tyrp1 trafficking in melanocytes.
Varp is a potential Rab21 guanine nucleotide exchange factor and might regulate endosome dynamics in vivo
Title: Varp is a Rab21 guanine nucleotide exchange factor and regulates endosome dynamics.

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Variation

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Alleles

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

Endonuclease-mediated (3)
Gene trapped (1)
Targeted (2)

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

Ankrd27 (e-PCR), detects polymorphism
- UniSTS:495903

NoName (e-PCR)
- UniSTS:235649

RH124667 (e-PCR)
- UniSTS:161489

Gene Ontology Provided by MGI

Function	Evidence Code	Pubs
enables GTPase activator activity	IEA Inferred from Electronic Annotation more info
enables SNARE binding	IBA Inferred from Biological aspect of Ancestor more info
enables SNARE binding	IDA Inferred from Direct Assay more info	PubMed
enables SNARE binding	ISO Inferred from Sequence Orthology more info
enables guanyl-nucleotide exchange factor activity	IBA Inferred from Biological aspect of Ancestor more info
enables guanyl-nucleotide exchange factor activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables small GTPase binding	IDA Inferred from Direct Assay more info	PubMed
enables small GTPase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in early endosome to late endosome transport	IBA Inferred from Biological aspect of Ancestor more info
acts_upstream_of_or_within early endosome to late endosome transport	ISO Inferred from Sequence Orthology more info
involved_in endocytic recycling	ISO Inferred from Sequence Orthology more info
involved_in endosome to melanosome transport	IDA Inferred from Direct Assay more info	PubMed
involved_in negative regulation of SNARE complex assembly	ISO Inferred from Sequence Orthology more info
involved_in neuron projection morphogenesis	IBA Inferred from Biological aspect of Ancestor more info
involved_in neuron projection morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of dendrite morphogenesis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of neuron projection development	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within protein transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in cytosol	ISO Inferred from Sequence Orthology more info
is_active_in early endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in early endosome	ISO Inferred from Sequence Orthology more info
located_in endosome	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
is_active_in late endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in late endosome	ISO Inferred from Sequence Orthology more info
located_in lysosome	ISO Inferred from Sequence Orthology more info
located_in melanosome	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in neuron projection	IBA Inferred from Biological aspect of Ancestor more info
located_in neuron projection	IDA Inferred from Direct Assay more info	PubMed
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
is_active_in transport vesicle	IBA Inferred from Biological aspect of Ancestor more info
located_in transport vesicle	IDA Inferred from Direct Assay more info	PubMed
is_active_in tubular endosome	IBA Inferred from Biological aspect of Ancestor more info
located_in tubular endosome	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: ankyrin repeat domain-containing protein 27

Names: VPS9 domain-containing protein; VPS9-ankyrin repeat-containing protein; VPS9-ankyrin-repeat protein; ankyrin repeat domain 27 (VPS9 domain); mFLJ00040 protein

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)

NM_001358876.1 → NP_001345805.1 ankyrin repeat domain-containing protein 27 isoform 3

Status: VALIDATED

Source sequence(s)

AC151531

UniProtKB/TrEMBL

C4TGC3

Related

ENSMUSP00000140259.2, ENSMUST00000190503.7

Conserved Domains (4) summary

cd00204
Location:722 → 847

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

sd00045
Location:764 → 791

ANK; ANK repeat [structural motif]

cl19569
Location:264 → 363

VPS9; Vacuolar sorting protein 9 (VPS9) domain

cl26073
Location:559 → 625

Ank_2; Ankyrin repeats (3 copies)
NM_145633.3 → NP_663608.3 ankyrin repeat domain-containing protein 27 isoform 1

See identical proteins and their annotated locations for NP_663608.3

Status: VALIDATED

Source sequence(s)

AK144733, BC065093, BY070464, BY376293

Consensus CDS

CCDS21154.1

UniProtKB/Swiss-Prot

Q3UMR0, Q6KAU0, Q6P1F9, Q7TNY8, Q8BUD2, Q91W65

UniProtKB/TrEMBL

C4TGC3

Related

ENSMUSP00000041751.10, ENSMUST00000040844.16

Conserved Domains (4) summary

cd00204
Location:737 → 862

ANK; ankyrin repeats; ankyrin repeats mediate protein-protein interactions in very diverse families of proteins. The number of ANK repeats in a protein can range from 2 to over 20 (ankyrins, for example). ANK repeats may occur in combinations with other ...

pfam12796
Location:780 → 872

Ank_2; Ankyrin repeats (3 copies)

sd00045
Location:779 → 806

ANK; ANK repeat [structural motif]

cl19569
Location:264 → 363

VPS9; Vacuolar sorting protein 9 (VPS9) domain
NM_178263.3 → NP_839994.1 ankyrin repeat domain-containing protein 27 isoform 2

See identical proteins and their annotated locations for NP_839994.1

Status: VALIDATED

Source sequence(s)

AI429389, AK085796, AK144733, BY070464

Consensus CDS

CCDS80706.1

UniProtKB/TrEMBL

A0A0R4J2C4, A0A0U1RPT7

Related

ENSMUSP00000140554.2, ENSMUST00000186245.7

Conserved Domains (1) summary

cl19569
Location:264 → 363

VPS9; Vacuolar sorting protein 9 (VPS9) domain

RNA

NR_152519.1 RNA Sequence

Status: VALIDATED

Source sequence(s)

AC151531

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

NC_000073.7 Reference GRCm39 C57BL/6J

Range

35285652..35338662

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_006539986.3 → XP_006540049.1 ankyrin repeat domain-containing protein 27 isoform X1

UniProtKB/TrEMBL

C4TGC3

Conserved Domains (4) summary

PHA02874
Location:350 → 570

PHA02874; ankyrin repeat protein; Provisional

sd00045
Location:742 → 769

ANK; ANK repeat [structural motif]

pfam12796
Location:743 → 835

Ank_2; Ankyrin repeats (3 copies)

cl19569
Location:227 → 326

VPS9; Vacuolar sorting protein 9 (VPS9) domain
XM_030242590.2 → XP_030098450.1 ankyrin repeat domain-containing protein 27 isoform X2

UniProtKB/TrEMBL

C4TGC3

Conserved Domains (4) summary

PHA02874
Location:183 → 403

PHA02874; ankyrin repeat protein; Provisional

sd00045
Location:575 → 602

ANK; ANK repeat [structural motif]

pfam12796
Location:576 → 668

Ank_2; Ankyrin repeats (3 copies)

cl19569
Location:60 → 159

VPS9; Vacuolar sorting protein 9 (VPS9) domain