Odf4 (outer dense fiber of sperm tails 4) - Rat Genome Database

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Gene: Odf4 (outer dense fiber of sperm tails 4) Mus musculus
Analyze
Symbol: Odf4
Name: outer dense fiber of sperm tails 4
RGD ID: 1618933
MGI Page MGI
Description: Predicted to act upstream of or within cell differentiation and spermatogenesis. Located in outer dense fiber. Is expressed in ductus deferens; epididymis; prostate gland; and testis. Orthologous to human ODF4 (outer dense fiber of sperm tails 4).
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: O; Oppo1; outer dense fiber of sperm tails protein 4; outer dense fiber protein 4; RP23-396M19.5; testis-specific protein oppo 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391168,812,661 - 68,817,907 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1168,812,661 - 68,817,907 (-)EnsemblGRCm39 Ensembl
GRCm381168,921,835 - 68,927,081 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1168,921,835 - 68,927,081 (-)EnsemblGRCm38mm10GRCm38
MGSCv371168,735,337 - 68,740,583 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361168,738,030 - 68,743,244 (-)NCBIMGSCv36mm8
Celera1175,846,861 - 75,870,261 (-)NCBICelera
Cytogenetic Map11B3NCBI
cM Map1142.19NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12079992   PMID:12466851   PMID:12477932   PMID:14610273   PMID:21267068   PMID:21873635   PMID:24194600   PMID:36804949  


Genomics

Comparative Map Data
Odf4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391168,812,661 - 68,817,907 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1168,812,661 - 68,817,907 (-)EnsemblGRCm39 Ensembl
GRCm381168,921,835 - 68,927,081 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1168,921,835 - 68,927,081 (-)EnsemblGRCm38mm10GRCm38
MGSCv371168,735,337 - 68,740,583 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361168,738,030 - 68,743,244 (-)NCBIMGSCv36mm8
Celera1175,846,861 - 75,870,261 (-)NCBICelera
Cytogenetic Map11B3NCBI
cM Map1142.19NCBI
ODF4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38178,339,840 - 8,346,046 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl178,339,840 - 8,346,048 (+)EnsemblGRCh38hg38GRCh38
GRCh37178,243,158 - 8,249,364 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36178,183,913 - 8,190,088 (+)NCBINCBI36Build 36hg18NCBI36
Build 34178,183,912 - 8,190,088NCBI
Celera178,273,957 - 8,280,131 (+)NCBICelera
Cytogenetic Map17p13.1NCBI
HuRef178,138,433 - 8,144,607 (+)NCBIHuRef
CHM1_1178,252,087 - 8,258,262 (+)NCBICHM1_1
T2T-CHM13v2.0178,246,077 - 8,252,283 (+)NCBIT2T-CHM13v2.0
Odf4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81054,127,398 - 54,133,227 (-)NCBIGRCr8
mRatBN7.21053,628,592 - 53,634,525 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1053,628,759 - 53,634,359 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1058,290,058 - 58,295,606 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01057,778,660 - 57,784,208 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01053,287,829 - 53,293,382 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01055,510,333 - 55,516,315 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1055,510,340 - 55,515,885 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01055,252,746 - 55,258,553 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41055,680,924 - 55,686,475 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11055,694,547 - 55,700,098 (-)NCBI
Celera1052,795,114 - 52,800,664 (-)NCBICelera
Cytogenetic Map10q24NCBI
Odf4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_0049554678,556,722 - 8,570,624 (-)NCBIChiLan1.0ChiLan1.0
ODF4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21965,408,270 - 65,415,453 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11770,217,734 - 70,224,923 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01743,313,586 - 43,320,058 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11748,046,641 - 48,053,339 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1748,046,835 - 48,053,135 (-)Ensemblpanpan1.1panPan2
ODF4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1533,118,401 - 33,121,979 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl533,120,604 - 33,121,945 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha533,254,421 - 33,257,858 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0533,221,681 - 33,225,126 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl533,221,140 - 33,225,124 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1533,188,623 - 33,192,059 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0533,144,093 - 33,147,532 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0533,323,902 - 33,327,349 (+)NCBIUU_Cfam_GSD_1.0
Odf4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440560248,086,768 - 48,093,873 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365951,560,859 - 1,568,037 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ODF4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11253,517,175 - 53,525,458 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21255,993,468 - 56,001,070 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ODF4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1167,701,778 - 7,710,712 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl167,702,105 - 7,710,503 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366605913,688,914 - 13,694,952 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Odf4
139 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:1249
Count of miRNA genes:529
Interacting mature miRNAs:638
Transcripts:ENSMUST00000038932, ENSMUST00000125134, ENSMUST00000130271, ENSMUST00000156828
Prediction methods:Microtar, Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.


QTLs in Region (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
26884453Sklq16_mskull length QTL 16, 16 week (mouse)11325000072690826Mouse
13208559Wght10_mweight 10 (mouse)11395000088890826Mouse
13208558Lgth12_mbody length 12 (mouse)11395000094890826Mouse
1300905Scc6_mcolon tumor susceptibility 6 (mouse)Not determined11688027789019734Mouse
1559002Lmrq4_mLeishmania major resistance QTL 4 (mouse)Not determined111226863769684947Mouse
39128214Lwq20_mliver weight QTL 20 (mouse)1112268637118022724Mouse
4141894Nidd6k_mNidd6 on KK-A (mouse)Not determined1912420496897826Mouse
10412246Dfs2_mdental fluorosis suseptibility 2 (mouse)Not determined112180736495881231Mouse
1357782Char8_mP. chabaudi malaria resistance QTL 8 (mouse)Not determined113557861669684987Mouse
13208569Bmiq10_mbody mass index QTL 10 (mouse)113589082784890826Mouse
1301328Mol4_mmodifier of LPS-response 4 (mouse)Not determined113628257783481356Mouse
1301788Lbw8_mlupus NZB x NZW 8 (mouse)Not determined113650328770509492Mouse
1301896Tria1_mT-cell receptor induced activation 1 (mouse)Not determined113661356570613855Mouse
4141853Skmw17_mskeletal muscle weight 17 (mouse)Not determined113708094171081064Mouse
10766457Nwa3_mNew Zealand White autoimmunity 3 (mouse)113801611572016209Mouse
11532698Sluc36a_msusceptibility to lung cancer 36a (mouse)114225661776256730Mouse
11532699Sluc36b_msusceptibility to lung cancer 36b (mouse)114225661776256730Mouse
4142300Ctrq3_mC. trachomatis resistance QTL 3 (mouse)Not determined114463003876854757Mouse
4141367Inf1_macute ozone induced inflammation (mouse)Not determined44630038113058009Mouse
1302021Nidd1n_mnon-insulin-dependent diabetes mellitus 1 in NSY (mouse)Not determined114516587379978324Mouse
1357878Mastr_mmodifier of astrocytoma (mouse)Not determined114570858189818733Mouse
1300765Bbaa4_mB.burgdorferi-associated arthritis 4 (mouse)Not determined114618516780185262Mouse
1301988Bmd11_mbone mineral density 11 (mouse)Not determined114631940780319522Mouse
1301830Ssta4_msusceptibility to Salmonella typhimurium antigens 4 (mouse)Not determined115007819184078411Mouse
13524840Ppiq9a_mprepulse inhibition QTL 9a (mouse)115249438586494385Mouse
1300774Pgia7_mproteoglycan induced arthritis 7 (mouse)Not determined115339058887390737Mouse
4141830Pregq1_mpregnancy QTL 1 (mouse)Not determined115412675283733652Mouse
4141875Etax9_methanol induced ataxia 9 (mouse)Not determined5528498572209927Mouse
4142121Tmc1m2_mTmc1 modifier 2 (mouse)Not determined1156864027114157957Mouse
1300664Etohcta9_methanol conditioned taste aversion 9 (mouse)Not determined115775466091754758Mouse
10053682Eae45_mexperimental allergic encephalomyelitis susceptibility 45 (mouse)Not determined115849055574754758Mouse
1300924Ity2_mimmunity to S. typhimurium 2 (mouse)Not determined15850803087695238Mouse
4141982Skts-fp2_mskin tumor susceptibility in FVB and PWK 2 (mouse)Not determined5871926685066529Mouse
11532697Sluc36_msusceptibility to lung cancer 36 (mouse)115925661769482699Mouse
1301987Pid3_mprior incubation determinant 3 (mouse)Not determined116168682088699728Mouse
1301319Dautb4_mdopamine uptake transporter binding 4 (mouse)Not determined116215600596156153Mouse
27226730Tibmd1_mtibia midshaft diameter 1, 5 week (mouse)1162590826109390826Mouse
1301999Lmr15_mleishmaniasis resistance 15 (mouse)Not determined116331940781830473Mouse
10044004Stzid3_mstreptozotocin induced diabetes susceptibility 3 (mouse)Not determined116331940794063918Mouse
11039502Ltpr6b_mLeishmania tropica response 6b (mouse)116483033698830473Mouse
11039501Ltpr6a_mLeishmania tropica response 6a (mouse)116483033698830473Mouse
11039515Ltpr6_mLeishmania tropica response 6 (mouse)116483033698830473Mouse
1357766Si5lq6_mserum IGFBP-5 level QTL 6 (mouse)Not determined1166733420100733652Mouse
1301546Pcir2_mperiosteal circumference 2 (mouse)Not determined1166733420100733652Mouse
1301833Tbbmd5_mtotal body bone mineral density 5 (mouse)Not determined1166733420100733652Mouse
1300628Lgth6_mbody length 6 (mouse)Not determined1166733420100733652Mouse
4141012Femwf6_mfemur work to failure 6 (mouse)Not determined66733420100733652Mouse
1300784Prdt3_mprion disease incubation time 3 (mouse)Not determined1166733420100733652Mouse
4142316Ity2b_mimmunity to S. typhimurium 2b (mouse)Not determined116707819179813912Mouse
27226783Tibl5_mtibia length 5, 5 week (mouse)1168190826101890826Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000038932   ⟹   ENSMUSP00000040050
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1168,812,661 - 68,817,875 (-)Ensembl
GRCm38.p6 Ensembl1168,921,835 - 68,927,049 (-)Ensembl
RefSeq Acc Id: ENSMUST00000125134   ⟹   ENSMUSP00000133636
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1168,813,645 - 68,817,900 (-)Ensembl
GRCm38.p6 Ensembl1168,922,819 - 68,927,074 (-)Ensembl
RefSeq Acc Id: ENSMUST00000130271   ⟹   ENSMUSP00000134383
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1168,812,662 - 68,817,907 (-)Ensembl
GRCm38.p6 Ensembl1168,921,836 - 68,927,081 (-)Ensembl
RefSeq Acc Id: ENSMUST00000156828   ⟹   ENSMUSP00000133569
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl1168,812,789 - 68,817,642 (-)Ensembl
GRCm38.p6 Ensembl1168,921,963 - 68,926,816 (-)Ensembl
RefSeq Acc Id: NM_145746   ⟹   NP_665689
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm391168,812,661 - 68,817,907 (-)NCBI
GRCm381168,921,835 - 68,927,081 (-)NCBI
MGSCv371168,735,337 - 68,740,583 (-)RGD
Celera1175,846,861 - 75,870,261 (-)RGD
cM Map11 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_665689 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAH60992 (Get FASTA)   NCBI Sequence Viewer  
  BAB83865 (Get FASTA)   NCBI Sequence Viewer  
  EDL10459 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000040050
  ENSMUSP00000040050.8
  ENSMUSP00000133569.2
  ENSMUSP00000133636.2
  ENSMUSP00000134383.2
GenBank Protein Q8VI88 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_665689   ⟸   NM_145746
- UniProtKB: Q6P8Z7 (UniProtKB/Swiss-Prot),   Q8VI88 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: ENSMUSP00000133636   ⟸   ENSMUST00000125134
RefSeq Acc Id: ENSMUSP00000134383   ⟸   ENSMUST00000130271
RefSeq Acc Id: ENSMUSP00000133569   ⟸   ENSMUST00000156828
RefSeq Acc Id: ENSMUSP00000040050   ⟸   ENSMUST00000038932

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8VI88-F1-model_v2 AlphaFold Q8VI88 1-290 view protein structure

Promoters
RGD ID:8675124
Promoter ID:EPDNEW_M15593
Type:initiation region
Name:Odf4_1
Description:Mus musculus outer dense fiber of sperm tails 4 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm381168,927,094 - 68,927,154EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2182079 AgrOrtholog
Ensembl Genes ENSMUSG00000032921 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSMUST00000038932 ENTREZGENE
  ENSMUST00000038932.14 UniProtKB/Swiss-Prot
  ENSMUST00000125134.2 UniProtKB/TrEMBL
  ENSMUST00000130271.8 UniProtKB/Swiss-Prot
  ENSMUST00000156828.2 UniProtKB/TrEMBL
Gene3D-CATH 1.20.140.150 UniProtKB/Swiss-Prot
KEGG Report mmu:252868 UniProtKB/Swiss-Prot
MGD MGI:2182079 ENTREZGENE
NCBI Gene 252868 ENTREZGENE
PANTHER EPITHELIAL MEMBRANE PROTEIN-RELATED UniProtKB/Swiss-Prot
  OUTER DENSE FIBER PROTEIN 4 UniProtKB/Swiss-Prot
PhenoGen Odf4 PhenoGen
UniProt A0A0R4J255_MOUSE UniProtKB/TrEMBL
  G3UX65_MOUSE UniProtKB/TrEMBL
  ODFP4_MOUSE UniProtKB/Swiss-Prot
  Q6P8Z7 ENTREZGENE
  Q8VI88 ENTREZGENE
UniProt Secondary Q6P8Z7 UniProtKB/Swiss-Prot