Macf1 microtubule-actin crosslinking factor 1 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Macf1provided by RGD
Official Full Name: microtubule-actin crosslinking factor 1provided by RGD
Primary source: RGD:1306057
See related: EnsemblRapid:ENSRNOG00000016047 AllianceGenome:RGD:1306057
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Summary: Predicted to enable ATP hydrolysis activity; cytoskeletal protein binding activity; and structural molecule activity. Involved in positive regulation of Wnt signaling pathway. Located in membrane. Human ortholog(s) of this gene implicated in lissencephaly 9 with complex brainstem malformation. Orthologous to human MACF1 (microtubule actin crosslinking factor 1). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Lung (RPKM 1900.5), Spleen (RPKM 604.1) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 5q36

Exon count:: 110

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	5	NC_086023.1 (140908829..141234127, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	5	NC_051340.1 (135623734..135949097, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	5	NC_005104.4 (141039455..141363524, complement)

Chromosome 5 - NC_086023.1 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: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Strong Macf1 expression was observed in the inner plexiform layer and granular cell layer where it was colocalizied with Thy-1 staining.
Title: The neuronal EGF-related gene Nell2 interacts with Macf1 and supports survival of retinal ganglion cells after optic nerve injury.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

BQ193041 (e-PCR)
- UniSTS:261380

RH133884 (e-PCR)
- UniSTS:217167

RH131646 (e-PCR)
- UniSTS:214929

AA858740 (e-PCR)
- UniSTS:243421

SHGC-74638 (e-PCR)
- UniSTS:57569

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ATP hydrolysis activity	ISO Inferred from Sequence Orthology more info
enables actin binding	IEA Inferred from Electronic Annotation more info
enables actin binding	ISO Inferred from Sequence Orthology more info
enables actin filament binding	ISO Inferred from Sequence Orthology more info
enables actin filament binding	ISS Inferred from Sequence or Structural Similarity more info
enables calcium ion binding	IEA Inferred from Electronic Annotation more info
enables microtubule binding	IEA Inferred from Electronic Annotation more info
enables microtubule binding	ISO Inferred from Sequence Orthology more info
enables microtubule minus-end binding	ISO Inferred from Sequence Orthology more info
enables microtubule minus-end binding	ISS Inferred from Sequence or Structural Similarity more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables structural molecule activity	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in Golgi to plasma membrane protein transport	ISO Inferred from Sequence Orthology more info
involved_in Golgi to plasma membrane protein transport	ISS Inferred from Sequence or Structural Similarity more info
acts_upstream_of_or_within Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within cell migration	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within establishment or maintenance of cell polarity	ISO Inferred from Sequence Orthology more info
involved_in intermediate filament cytoskeleton organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in intermediate filament cytoskeleton organization	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within mesoderm formation	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of Wnt signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in positive regulation of Wnt signaling pathway	ISO Inferred from Sequence Orthology more info
involved_in positive regulation of axon extension	ISO Inferred from Sequence Orthology more info
acts_upstream_of_or_within post-translational protein targeting to endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell migration	ISO Inferred from Sequence Orthology more info
involved_in regulation of cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of epithelial cell migration	ISO Inferred from Sequence Orthology more info
involved_in regulation of epithelial cell migration	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of focal adhesion assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of focal adhesion assembly	ISO Inferred from Sequence Orthology more info
involved_in regulation of focal adhesion assembly	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of microtubule-based process	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of microtubule-based process	ISO Inferred from Sequence Orthology more info
involved_in regulation of microtubule-based process	ISS Inferred from Sequence or Structural Similarity more info
involved_in regulation of neuron projection arborization	ISO Inferred from Sequence Orthology more info
involved_in regulation of neuron projection arborization	ISS Inferred from Sequence or Structural Similarity more info
involved_in wound healing	IBA Inferred from Biological aspect of Ancestor more info
involved_in wound healing	ISO Inferred from Sequence Orthology more info
involved_in wound healing	ISS Inferred from Sequence or Structural Similarity more info

Component	Evidence Code	Pubs
located_in Golgi apparatus	ISO Inferred from Sequence Orthology more info
located_in Golgi apparatus	ISS Inferred from Sequence or Structural Similarity more info
is_active_in actin cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info
located_in actin cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in cell junction	IEA Inferred from Electronic Annotation more info
located_in cell junction	ISO Inferred from Sequence Orthology more info
located_in cell projection	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasm	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in cytoplasm	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	ISS Inferred from Sequence or Structural Similarity more info
located_in cytoskeleton	IEA Inferred from Electronic Annotation more info
colocalizes_with intermediate filament	IBA Inferred from Biological aspect of Ancestor more info
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in microtubule	IBA Inferred from Biological aspect of Ancestor more info
located_in microtubule	IEA Inferred from Electronic Annotation more info
located_in microtubule	ISO Inferred from Sequence Orthology more info
located_in microtubule	ISS Inferred from Sequence or Structural Similarity more info
located_in microtubule cytoskeleton	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	IEA Inferred from Electronic Annotation more info
located_in plasma membrane	ISO Inferred from Sequence Orthology more info
located_in plasma membrane	ISS Inferred from Sequence or Structural Similarity more info
located_in postsynaptic density	ISO Inferred from Sequence Orthology more info
located_in ruffle membrane	ISO Inferred from Sequence Orthology more info
located_in ruffle membrane	ISS Inferred from Sequence or Structural Similarity more info

General protein information

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Preferred Names: microtubule-actin cross-linking factor 1

Names: actin cross-linking family 7

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_001135758.3 → NP_001129230.2 microtubule-actin cross-linking factor 1

Status: VALIDATED

Source sequence(s)

JAXUCZ010000005

UniProtKB/TrEMBL

A0A0G2JWA8

Related

ENSRNOP00000082051.1, ENSRNOT00000099669.2

Conserved Domains (9) summary

smart00243
Location:7077 → 7155

GAS2; Growth-Arrest-Specific Protein 2 Domain

smart00150
Location:6840 → 6964

SPEC; Spectrin repeats

cd00014
Location:79 → 181

CH; Calponin homology domain; actin-binding domain which may be present as a single copy or in tandem repeats (which increases binding affinity). The CH domain is found in cytoskeletal and signal transduction proteins, including actin-binding proteins like ...

cd00051
Location:7002 → 7064

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

cd00176
Location:6178 → 6394

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

pfam00681
Location:1769 → 1809

Plectin; Plectin repeat

pfam05956
Location:7212 → 7349

APC_basic; APC basic domain

pfam13499
Location:7003 → 7063

EF-hand_7; EF-hand domain pair

cl02488
Location:3447 → 3684

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

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

Reference GRCr8

Genomic

NC_086023.1 Reference GRCr8

Range

140908829..141234127 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063288002.1 → XP_063144072.1 microtubule-actin cross-linking factor 1 isoform X11
XM_063287999.1 → XP_063144069.1 microtubule-actin cross-linking factor 1 isoform X10
XM_063288000.1 → XP_063144070.1 microtubule-actin cross-linking factor 1 isoform X11
XM_039110337.2 → XP_038966265.1 microtubule-actin cross-linking factor 1 isoform X10

UniProtKB/TrEMBL

A0A8I6AAP8

Conserved Domains (11) summary

smart00243
Location:7214 → 7289

GAS2; Growth-Arrest-Specific Protein 2 Domain

smart00150
Location:6981 → 7105

SPEC; Spectrin repeats

COG1196
Location:4180 → 5018

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

cd00051
Location:7139 → 7201

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

cd00176
Location:6319 → 6535

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3357 → 4208

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam00681
Location:1801 → 1837

Plectin; Plectin repeat

pfam17902
Location:889 → 955

SH3_10; SH3 domain

pfam18373
Location:990 → 1067

Spectrin_like; Spectrin like domain

cd21188
Location:77 → 213

CH_PLEC-like_rpt1; first calponin homology (CH) domain found in the plectin/dystonin/MACF1 family

cd21240
Location:224 → 330

CH_MACF1_rpt2; second calponin homology (CH) domain found in microtubule-actin cross-linking factor 1, isoforms 1/2/3/5 (MACF1) and similar proteins
XM_039110340.2 → XP_038966268.1 microtubule-actin cross-linking factor 1 isoform X26

UniProtKB/TrEMBL

A0A8I6ATL8

Related

ENSRNOP00000069001.3, ENSRNOT00000091828.3

Conserved Domains (11) summary

smart00243
Location:7182 → 7260

GAS2; Growth-Arrest-Specific Protein 2 Domain

smart00150
Location:6949 → 7073

SPEC; Spectrin repeats

COG1196
Location:4148 → 4986

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

cd00051
Location:7107 → 7169

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

cd00176
Location:6287 → 6503

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3325 → 4176

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam00681
Location:1769 → 1805

Plectin; Plectin repeat

pfam17902
Location:857 → 923

SH3_10; SH3 domain

pfam18373
Location:958 → 1035

Spectrin_like; Spectrin like domain

cd21188
Location:77 → 181

CH_PLEC-like_rpt1; first calponin homology (CH) domain found in the plectin/dystonin/MACF1 family

cd21240
Location:192 → 298

CH_MACF1_rpt2; second calponin homology (CH) domain found in microtubule-actin cross-linking factor 1, isoforms 1/2/3/5 (MACF1) and similar proteins
XM_039110338.2 → XP_038966266.1 microtubule-actin cross-linking factor 1 isoform X25

UniProtKB/TrEMBL

A0A8I6AAP8

Related

ENSRNOP00000041065.7, ENSRNOT00000045400.7

Conserved Domains (11) summary

smart00243
Location:7214 → 7292

GAS2; Growth-Arrest-Specific Protein 2 Domain

smart00150
Location:6981 → 7105

SPEC; Spectrin repeats

COG1196
Location:4180 → 5018

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]

cd00051
Location:7139 → 7201

EFh; EF-hand, calcium binding motif; A diverse superfamily of calcium sensors and calcium signal modulators; most examples in this alignment model have 2 active canonical EF hands. Ca2+ binding induces a conformational change in the EF-hand motif, leading to ...

cd00176
Location:6319 → 6535

SPEC; Spectrin repeats, found in several proteins involved in cytoskeletal structure; family members include spectrin, alpha-actinin and dystrophin; the spectrin repeat forms a three helix bundle with the second helix interrupted by proline in some sequences; ...

TIGR02168
Location:3357 → 4208

SMC_prok_B; chromosome segregation protein SMC, common bacterial type

pfam00681
Location:1801 → 1837

Plectin; Plectin repeat

pfam17902
Location:889 → 955

SH3_10; SH3 domain

pfam18373
Location:990 → 1067

Spectrin_like; Spectrin like domain

cd21188
Location:77 → 213

CH_PLEC-like_rpt1; first calponin homology (CH) domain found in the plectin/dystonin/MACF1 family

cd21240
Location:224 → 330

CH_MACF1_rpt2; second calponin homology (CH) domain found in microtubule-actin cross-linking factor 1, isoforms 1/2/3/5 (MACF1) and similar proteins
XM_063288013.1 → XP_063144083.1 microtubule-actin cross-linking factor 1 isoform X22
XM_063288012.1 → XP_063144082.1 microtubule-actin cross-linking factor 1 isoform X21
XM_063288015.1 → XP_063144085.1 microtubule-actin cross-linking factor 1 isoform X24
XM_063288014.1 → XP_063144084.1 microtubule-actin cross-linking factor 1 isoform X23
XM_063288001.1 → XP_063144071.1 microtubule-actin cross-linking factor 1 isoform X11
XM_063287997.1 → XP_063144067.1 microtubule-actin cross-linking factor 1 isoform X10
XM_063288005.1 → XP_063144075.1 microtubule-actin cross-linking factor 1 isoform X14
XM_063288008.1 → XP_063144078.1 microtubule-actin cross-linking factor 1 isoform X17
XM_063288003.1 → XP_063144073.1 microtubule-actin cross-linking factor 1 isoform X12

Related

ENSRNOP00000084588.2, ENSRNOT00000101846.2
XM_063288006.1 → XP_063144076.1 microtubule-actin cross-linking factor 1 isoform X15
XM_063288009.1 → XP_063144079.1 microtubule-actin cross-linking factor 1 isoform X18
XM_063288007.1 → XP_063144077.1 microtubule-actin cross-linking factor 1 isoform X16
XM_063288004.1 → XP_063144074.1 microtubule-actin cross-linking factor 1 isoform X13

Related

ENSRNOP00000077375.1, ENSRNOT00000103325.2
XM_063287990.1 → XP_063144060.1 microtubule-actin cross-linking factor 1 isoform X3
XM_063287996.1 → XP_063144066.1 microtubule-actin cross-linking factor 1 isoform X9
XM_063287989.1 → XP_063144059.1 microtubule-actin cross-linking factor 1 isoform X2
XM_063287987.1 → XP_063144057.1 microtubule-actin cross-linking factor 1 isoform X1
XM_063287992.1 → XP_063144062.1 microtubule-actin cross-linking factor 1 isoform X5
XM_063287991.1 → XP_063144061.1 microtubule-actin cross-linking factor 1 isoform X4
XM_063287993.1 → XP_063144063.1 microtubule-actin cross-linking factor 1 isoform X6
XM_063287995.1 → XP_063144065.1 microtubule-actin cross-linking factor 1 isoform X8
XM_063287994.1 → XP_063144064.1 microtubule-actin cross-linking factor 1 isoform X7
XM_063288011.1 → XP_063144081.1 microtubule-actin cross-linking factor 1 isoform X20
XM_063288010.1 → XP_063144080.1 microtubule-actin cross-linking factor 1 isoform X19