Odf2 outer dense fiber of sperm tails 2 [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Odf2provided by RGD
Official Full Name: outer dense fiber of sperm tails 2provided by RGD
Primary source: RGD:3229
See related: EnsemblRapid:ENSRNOG00000014584 AllianceGenome:RGD:3229
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 small GTPase binding activity. Involved in spermatid development. Located in outer dense fiber. Orthologous to human ODF2 (outer dense fiber of sperm tails 2). [provided by Alliance of Genome Resources, Nov 2024]
Expression: Biased expression in Testes (RPKM 3221.4) and Thymus (RPKM 126.0) See more
Orthologs: human mouse all
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Genomic context

Location:: 3p12

Exon count:: 24

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	3	NC_086021.1 (33557738..33605076)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	3	NC_051338.1 (13160981..13207223)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	3	NC_005102.4 (8449733..8495764)

Chromosome 3 - NC_086021.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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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
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?

The results suggested that the expression pattern of cenexin in rat spermatogenesis might be related to the initiation of the flagella formation.
Title: [Characterization of expression of the centrosomal protein, Cenexin, in rat spermatogenesis].
Finding of ODF2 in the dense fibrillar component of the nucleolus suggests that it highlights and adds to nucleolar function during spermatogenesis and early embryogenesis.
Title: Genomic origin, processing and developmental expression of testicular outer dense fiber 2 (ODF2) transcripts and a novel nucleolar localization of ODF2 protein.
Contains two leucine zippers and potential phosphorylation sites at serine, threonine, and tyrosine residues. This novel member of the cenexin/odf2 family exhibits functional divergence.
Title: A sperm cytoskeletal protein TSA70 is a novel phosphorylated member of cenexin/odf2 family.
Data demonstrate that outer dense fibre protein 2 is a self-interacting protein that forms a fibrillar structure partially linked to the microtubule network.
Title: Outer dense fibre protein 2 (ODF2) is a self-interacting centrosomal protein with affinity for microtubules.

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

Odf2 (e-PCR), detects polymorphism
- UniSTS:515334

Odf2 (e-PCR), detects polymorphism
- UniSTS:515335

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables small GTPase binding	ISO Inferred from Sequence Orthology more info

Process	Evidence Code	Pubs
involved_in cell differentiation	IEA Inferred from Electronic Annotation more info
involved_in centriole-centriole cohesion	ISO Inferred from Sequence Orthology more info
involved_in cilium organization	ISO Inferred from Sequence Orthology more info
involved_in protein localization	ISO Inferred from Sequence Orthology more info
involved_in regulation of cilium assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of cilium assembly	ISO Inferred from Sequence Orthology more info
involved_in spermatid development	IEP Inferred from Expression Pattern more info	PubMed
involved_in spermatogenesis	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
part_of centriolar subdistal appendage	ISO Inferred from Sequence Orthology more info
located_in centriole	IEA Inferred from Electronic Annotation more info
located_in centriole	ISO Inferred from Sequence Orthology more info
is_active_in centrosome	IBA Inferred from Biological aspect of Ancestor more info
located_in centrosome	IEA Inferred from Electronic Annotation more info
located_in centrosome	ISO Inferred from Sequence Orthology more info
located_in centrosome	ISS Inferred from Sequence or Structural Similarity more info
located_in ciliary basal body	ISO Inferred from Sequence Orthology more info
part_of ciliary transition fiber	IEA Inferred from Electronic Annotation more info
part_of ciliary transition fiber	ISO Inferred from Sequence Orthology more info
NOT located_in cilium	ISO Inferred from Sequence Orthology more info
located_in cilium	ISO Inferred from Sequence Orthology more info
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	IEA Inferred from Electronic Annotation more info
located_in intracellular membrane-bounded organelle	ISO Inferred from Sequence Orthology more info
located_in microtubule	IEA Inferred from Electronic Annotation more info
located_in motile cilium	IEA Inferred from Electronic Annotation more info
located_in outer dense fiber	IDA Inferred from Direct Assay more info	PubMed
located_in sperm flagellum	ISO Inferred from Sequence Orthology more info
located_in sperm midpiece	IEA Inferred from Electronic Annotation more info
located_in sperm midpiece	ISO Inferred from Sequence Orthology more info
located_in sperm midpiece	ISS Inferred from Sequence or Structural Similarity more info
located_in sperm principal piece	IEA Inferred from Electronic Annotation more info
located_in sperm principal piece	ISO Inferred from Sequence Orthology more info
located_in sperm principal piece	ISS Inferred from Sequence or Structural Similarity more info
located_in spindle pole	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: outer dense fiber protein 2

Names: 84 kDa outer dense fiber protein; cenexin; outer dense fiber of sperm tail 2; outer dense fiber of sperm tails protein 2; sperm outer dense fiber major protein 2; testis-specific autoantigen

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_001145005.2 → NP_001138477.1 outer dense fiber protein 2 isoform 1

See identical proteins and their annotated locations for NP_001138477.1

Status: VALIDATED

Description

Transcript Variant: This variant (1) encodes the longer isoform (1).

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A6JTT1, A6JTT6, G3V7X0

Related

ENSRNOP00000106847.1, ENSRNOT00000168851.1

Conserved Domains (1) summary

COG1196
Location:289 → 631

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
NM_001399108.1 → NP_001386037.1 outer dense fiber protein 2 isoform 3

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

Related

ENSRNOP00000086048.1, ENSRNOT00000106575.2

Conserved Domains (1) summary

COG1196
Location:95 → 779

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
NM_001399109.1 → NP_001386038.1 outer dense fiber protein 2 isoform 4

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

Conserved Domains (1) summary

COG1196
Location:95 → 400

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
NM_001399111.1 → NP_001386040.1 outer dense fiber protein 2 isoform 5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A6JTT4

Conserved Domains (1) summary

COG1196
Location:114 → 446

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
NM_001399112.1 → NP_001386041.1 outer dense fiber protein 2 isoform 5

Status: VALIDATED

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A6JTT4

Conserved Domains (1) summary

COG1196
Location:114 → 446

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
NM_017213.3 → NP_058909.2 outer dense fiber protein 2 isoform 2

See identical proteins and their annotated locations for NP_058909.2

Status: VALIDATED

Description

Transcript Variant: This variant (2) has an alternate 5' sequence including UTR and coding region, as compared to variant 1. The resulting isoform (2) has a shorter and different N-terminus, as compared to isoform 1.

Source sequence(s)

JAXUCZ010000003

UniProtKB/TrEMBL

A6JTT2, A6JTT6

Related

ENSRNOP00000049041.5, ENSRNOT00000040457.6

Conserved Domains (1) summary

COG1196
Location:100 → 432

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

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_086021.1 Reference GRCr8

Range

33557738..33605076

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_063283226.1 → XP_063139296.1 outer dense fiber protein 2 isoform X14

UniProtKB/TrEMBL

A0A0H2UHM4
XM_063283223.1 → XP_063139293.1 outer dense fiber protein 2 isoform X12
XM_063283229.1 → XP_063139299.1 outer dense fiber protein 2 isoform X16

Related

ENSRNOP00000020407.6, ENSRNOT00000020407.7
XM_017591524.3 → XP_017447013.1 outer dense fiber protein 2 isoform X6

UniProtKB/TrEMBL

A6JTT3
XM_063283222.1 → XP_063139292.1 outer dense fiber protein 2 isoform X11
XM_063283228.1 → XP_063139298.1 outer dense fiber protein 2 isoform X15
XM_063283232.1 → XP_063139302.1 outer dense fiber protein 2 isoform X18

Related

ENSRNOP00000020073.5, ENSRNOT00000020073.9
XM_017591523.3 → XP_017447012.1 outer dense fiber protein 2 isoform X5

UniProtKB/TrEMBL

A0A8L2UM86, A6JTT3

Conserved Domains (1) summary

COG1196
Location:144 → 828

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
XM_017591520.3 → XP_017447009.1 outer dense fiber protein 2 isoform X2

UniProtKB/TrEMBL

A6JTT3
XM_017591519.3 → XP_017447008.1 outer dense fiber protein 2 isoform X1

UniProtKB/TrEMBL

A6JTT3
XM_063283221.1 → XP_063139291.1 outer dense fiber protein 2 isoform X10
XM_039104449.2 → XP_038960377.1 outer dense fiber protein 2 isoform X4

UniProtKB/TrEMBL

A6JTT3

Conserved Domains (1) summary

COG1196
Location:163 → 847

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
XM_063283217.1 → XP_063139287.1 outer dense fiber protein 2 isoform X3
XM_039104450.2 → XP_038960378.1 outer dense fiber protein 2 isoform X8

UniProtKB/TrEMBL

A6JTT3

Conserved Domains (1) summary

COG1196
Location:119 → 826

Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
XM_063283225.1 → XP_063139295.1 outer dense fiber protein 2 isoform X13
XM_063283231.1 → XP_063139301.1 outer dense fiber protein 2 isoform X17
XM_063283218.1 → XP_063139288.1 outer dense fiber protein 2 isoform X7
XM_063283224.1 → XP_063139294.1 outer dense fiber protein 2 isoform X12
XM_063283227.1 → XP_063139297.1 outer dense fiber protein 2 isoform X14

UniProtKB/TrEMBL

A0A0H2UHM4
XM_063283230.1 → XP_063139300.1 outer dense fiber protein 2 isoform X16
XM_063283219.1 → XP_063139289.1 outer dense fiber protein 2 isoform X9
XM_063283233.1 → XP_063139303.1 outer dense fiber protein 2 isoform X19
XM_063283220.1 → XP_063139290.1 outer dense fiber protein 2 isoform X9
XM_039104456.2 → XP_038960384.1 outer dense fiber protein 2 isoform X20

Conserved Domains (2) summary

COG1196
Location:161 → 500

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

COG4372
Location:58 → 228

COG4372; Uncharacterized conserved protein, contains DUF3084 domain [Function unknown]
XM_039104458.2 → XP_038960386.1 outer dense fiber protein 2 isoform X21

Conserved Domains (2) summary

COG1196
Location:138 → 477

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

COG4372
Location:5 → 205

COG4372; Uncharacterized conserved protein, contains DUF3084 domain [Function unknown]
XM_039104455.2 → XP_038960383.1 outer dense fiber protein 2 isoform X20

Conserved Domains (2) summary

COG1196
Location:161 → 500

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

COG4372
Location:58 → 228

COG4372; Uncharacterized conserved protein, contains DUF3084 domain [Function unknown]