Odf2 (outer dense fiber of sperm tails 2) - Rat Genome Database

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Gene: Odf2 (outer dense fiber of sperm tails 2) Rattus norvegicus
Analyze
Symbol: Odf2
Name: outer dense fiber of sperm tails 2
RGD ID: 3229
Description: 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); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: 84 kDa outer dense fiber protein; cenexin; outer dense fiber of sperm tail 2; outer dense fiber of sperm tails protein 2; outer dense fiber protein 2; sperm outer dense fiber major protein 2; testis-specific autoantigen
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2313,160,981 - 13,207,223 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl313,161,494 - 13,206,985 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx316,236,158 - 16,281,960 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0324,821,123 - 24,866,923 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0323,072,277 - 23,117,752 (+)NCBIRnor_WKY
Rnor_6.038,449,733 - 8,495,764 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl38,450,275 - 8,496,008 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0313,793,222 - 13,839,956 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.438,876,934 - 8,910,367 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.138,878,024 - 8,910,664 (+)NCBI
Celera37,938,913 - 7,972,298 (+)NCBICelera
Cytogenetic Map3p12NCBI
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
1,2-dimethylhydrazine  (ISO)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
3,4-methylenedioxymethamphetamine  (ISO)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4-nitrophenol  (ISO)
acetohydrazide  (ISO)
acrolein  (ISO)
acrylamide  (EXP)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
alpha-pinene  (ISO)
ammonium chloride  (EXP)
antirheumatic drug  (ISO)
Aroclor 1254  (ISO)
arsenite(3-)  (ISO)
atrazine  (ISO)
benzo[a]pyrene  (ISO)
bisphenol A  (EXP,ISO)
bisphenol F  (ISO)
butanal  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
CGP 52608  (ISO)
ciguatoxin CTX1B  (ISO)
coumestrol  (ISO)
cyclosporin A  (ISO)
dexamethasone  (ISO)
dibutyl phthalate  (EXP)
dicrotophos  (ISO)
diethylstilbestrol  (EXP)
doxorubicin  (EXP,ISO)
Enterolactone  (ISO)
fenvalerate  (EXP)
flavonoids  (EXP)
folic acid  (ISO)
gentamycin  (EXP)
herbicide  (ISO)
hydrogen peroxide  (ISO)
indole-3-methanol  (EXP)
indometacin  (ISO)
lead(0)  (ISO)
lead(2+)  (ISO)
mercury dichloride  (EXP)
metolachlor  (ISO)
oxaliplatin  (EXP)
ozone  (ISO)
paracetamol  (ISO)
perfluorohexanesulfonic acid  (ISO)
perfluorononanoic acid  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (ISO)
pirinixic acid  (EXP,ISO)
potassium dichromate  (EXP,ISO)
resveratrol  (ISO)
rotenone  (EXP)
sodium fluoride  (ISO)
topotecan  (EXP)
trichloroethene  (EXP)
trimellitic anhydride  (ISO)
triptonide  (ISO)
tungsten  (ISO)
valproic acid  (ISO)
vinclozolin  (EXP)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Identification and characterization of new cDNAs encoding outer dense fiber proteins of rat sperm. Brohmann H, etal., J Biol Chem 1997 Apr 11;272(15):10327-32.
2. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Developmental expression of the 84-kDa ODF sperm protein: localization to both the cortex and medulla of outer dense fibers and to the connecting piece. Schalles U, etal., Dev Biol 1998 Jul 15;199(2):250-60.
7. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
8. Expression cloning of a rat testicular transcript abundant in germ cells, which contains two leucine zipper motifs. Turner KJ, etal., Biol Reprod 1997 Nov;57(5):1223-32.
Additional References at PubMed
PMID:15340007   PMID:15344312   PMID:16297385   PMID:16687649   PMID:16920728   PMID:17240355   PMID:17646400   PMID:18398819   PMID:19625297   PMID:21399614   PMID:21630459   PMID:23213374  
PMID:23386061   PMID:23400999   PMID:24157919   PMID:24421332   PMID:24947469   PMID:25361759   PMID:27682589   PMID:28422092   PMID:29487109   PMID:31904090  


Genomics

Comparative Map Data
Odf2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2313,160,981 - 13,207,223 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl313,161,494 - 13,206,985 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx316,236,158 - 16,281,960 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.0324,821,123 - 24,866,923 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.0323,072,277 - 23,117,752 (+)NCBIRnor_WKY
Rnor_6.038,449,733 - 8,495,764 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl38,450,275 - 8,496,008 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0313,793,222 - 13,839,956 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.438,876,934 - 8,910,367 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.138,878,024 - 8,910,664 (+)NCBI
Celera37,938,913 - 7,972,298 (+)NCBICelera
Cytogenetic Map3p12NCBI
ODF2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389128,455,185 - 128,501,292 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl9128,455,186 - 128,501,292 (+)EnsemblGRCh38hg38GRCh38
GRCh379131,217,464 - 131,263,571 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 369130,258,253 - 130,303,060 (+)NCBINCBI36Build 36hg18NCBI36
Build 349128,298,840 - 128,336,666NCBI
Celera9101,869,240 - 101,914,039 (+)NCBICelera
Cytogenetic Map9q34.11NCBI
HuRef9100,830,194 - 100,876,121 (+)NCBIHuRef
CHM1_19131,368,458 - 131,414,258 (+)NCBICHM1_1
T2T-CHM13v2.09140,662,221 - 140,708,139 (+)NCBIT2T-CHM13v2.0
Odf2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39229,779,026 - 29,821,758 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl229,779,233 - 29,821,758 (+)EnsemblGRCm39 Ensembl
GRCm38229,889,014 - 29,931,746 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl229,889,221 - 29,931,746 (+)EnsemblGRCm38mm10GRCm38
MGSCv37229,745,240 - 29,787,266 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36229,712,109 - 29,744,548 (+)NCBIMGSCv36mm8
Celera229,596,701 - 29,635,684 (+)NCBICelera
Cytogenetic Map2BNCBI
cM Map220.79NCBI
Odf2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955570932,041 - 968,012 (+)EnsemblChiLan1.0
ChiLan1.0NW_004955570932,002 - 966,602 (+)NCBIChiLan1.0ChiLan1.0
ODF2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.19128,245,049 - 128,291,206 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9128,245,049 - 128,291,202 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0999,577,891 - 99,623,581 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ODF2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1955,060,437 - 55,096,363 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl955,060,157 - 55,096,364 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha954,255,741 - 54,291,609 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0955,982,818 - 56,018,692 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl955,982,860 - 56,018,693 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1954,742,233 - 54,778,103 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0955,056,645 - 55,092,569 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0955,148,603 - 55,184,473 (-)NCBIUU_Cfam_GSD_1.0
Odf2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947196,219,307 - 196,261,012 (+)NCBIHiC_Itri_2
SpeTri2.0NW_00493648715,987,893 - 16,029,539 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ODF2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1268,856,766 - 268,893,387 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11268,856,755 - 268,893,390 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21302,878,924 - 302,915,877 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ODF2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1129,634,597 - 9,680,023 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl129,634,483 - 9,676,285 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660796,565,513 - 6,613,260 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Odf2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247606,430,604 - 6,462,671 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247606,430,584 - 6,462,584 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
70202Alc19Alcohol consumption QTL 192.5drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)3127494778Rat
631679Cm10Cardiac mass QTL 107.340.0001heart left ventricle mass (VT:0007031)heart left ventricle weight to body weight ratio (CMO:0000530)3131158234Rat
631831Alc8Alcohol consumption QTL 82.7consumption behavior trait (VT:0002069)calculated ethanol drink intake rate (CMO:0001615)3133230976Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)diastolic blood pressure (CMO:0000005)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)systolic blood pressure (CMO:0000004)3133278763Rat
61468Bp15Blood pressure QTL 154.4blood pressure trait (VT:0000183)pulse pressure (CMO:0000292)3133278763Rat
631545Bp85Blood pressure QTL 853.1arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3133278763Rat
4889966Bss95Bone structure and strength QTL 954.4tibia area (VT:1000281)tibia-fibula cross-sectional area (CMO:0001718)3136847613Rat
2312664Scl62Serum cholesterol level QTL 620.05blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)3138710544Rat
631568Bp92Blood pressure QTL 922.20.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)3139874793Rat
2290452Scl56Serum cholesterol level QTL 562.26blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)3191609953Rat
1298526Arunc3Aerobic running capacity QTL 32.2exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)3822719433703538Rat
10401810Kidm53Kidney mass QTL 53kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)3822719447233430Rat
70203Gcr2Gastric cancer resistance QTL 22.6stomach morphology trait (VT:0000470)stomach tumor susceptibility score (CMO:0002043)3865816227494778Rat
1358357Srcrtb1Stress Responsive Cort Basal QTL 16.360.002blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)3865816227494778Rat
6893355Bw101Body weight QTL 1010.40.38body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
6893363Bw105Body weight QTL 1052.60.0036body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
1558654Bw56Body weight QTL 564.50.0000171body mass (VT:0001259)body weight (CMO:0000012)31077870430357018Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in mean arterial blood pressure (CMO:0000533)31077870450302886Rat
70191BpQTLcluster4Blood pressure QTL cluster 43arterial blood pressure trait (VT:2000000)absolute change in systolic blood pressure (CMO:0000607)31077870450302886Rat
1558647Cm46Cardiac mass QTL 465.40.0000055heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
1558650Cm48Cardiac mass QTL 4840.0001heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)31077882330356773Rat
1558657Cm43Cardiac mass QTL 436.60.0000000293heart mass (VT:0007028)heart wet weight (CMO:0000069)31077882330356773Rat
1358905Hrtrt17Heart rate QTL 175.90.000014heart pumping trait (VT:2000009)heart rate (CMO:0000002)31086191289878372Rat

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:473
Count of miRNA genes:242
Interacting mature miRNAs:284
Transcripts:ENSRNOT00000020073, ENSRNOT00000020407, ENSRNOT00000040457, ENSRNOT00000041921
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.


Expression


RNA-SEQ Expression
High: > 1000 TPM value   Medium: Between 11 and 1000 TPM
Low: Between 0.5 and 10 TPM   Below Cutoff: < 0.5 TPM

alimentary part of gastrointestinal system circulatory system endocrine system exocrine system hemolymphoid system hepatobiliary system integumental system musculoskeletal system nervous system renal system reproductive system respiratory system appendage
High 7
Medium 3 28 37 22 19 22 1 1 74 33 34 11 1
Low 15 20 19 19 7 10 2 7
Below cutoff

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001145005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001399108 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001399109 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001399111 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_001399112 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_017213 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591519 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591520 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591521 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591522 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591523 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591524 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591525 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591526 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591527 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591528 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591529 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591530 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591531 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591532 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591533 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591534 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591535 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591536 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591537 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_017591538 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104449 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104450 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104451 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104452 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104453 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104454 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104455 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104456 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104457 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_039104458 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC114363 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF053971 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF162755 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF162756 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC078857 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH474001 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CK470868 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  EF197115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ225382 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JACYVU010000115 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  U62821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  X95272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000020073   ⟹   ENSRNOP00000020073
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl313,161,494 - 13,194,924 (+)Ensembl
Rnor_6.0 Ensembl38,450,275 - 8,483,703 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000020407   ⟹   ENSRNOP00000020407
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl313,161,831 - 13,206,985 (+)Ensembl
Rnor_6.0 Ensembl38,451,292 - 8,496,008 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000040457   ⟹   ENSRNOP00000049041
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl313,161,494 - 13,206,985 (+)Ensembl
Rnor_6.0 Ensembl38,450,612 - 8,483,703 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000041921   ⟹   ENSRNOP00000041336
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl313,161,569 - 13,201,083 (+)Ensembl
Rnor_6.0 Ensembl38,453,609 - 8,494,514 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000106575   ⟹   ENSRNOP00000086048
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl313,161,565 - 13,206,985 (+)Ensembl
RefSeq Acc Id: NM_001145005   ⟹   NP_001138477
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,494 - 13,194,927 (+)NCBI
Rnor_6.038,450,275 - 8,483,706 (+)NCBI
Rnor_5.0313,793,222 - 13,839,956 (+)NCBI
RGSC_v3.438,876,934 - 8,910,367 (+)RGD
Celera37,938,913 - 7,972,298 (+)RGD
Sequence:
RefSeq Acc Id: NM_017213   ⟹   NP_058909
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,831 - 13,194,927 (+)NCBI
Rnor_6.038,450,612 - 8,483,706 (+)NCBI
Rnor_5.0313,793,222 - 13,839,956 (+)NCBI
RGSC_v3.438,876,934 - 8,910,367 (+)RGD
Celera37,939,250 - 7,972,298 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591519   ⟹   XP_017447008
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,495 - 13,207,223 (+)NCBI
Rnor_6.038,450,264 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591520   ⟹   XP_017447009
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,480 - 13,207,223 (+)NCBI
Rnor_6.038,450,260 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591521   ⟹   XP_017447010
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,495 - 13,207,223 (+)NCBI
Rnor_6.038,450,264 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591523   ⟹   XP_017447012
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,480 - 13,207,223 (+)NCBI
Rnor_6.038,450,260 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591524   ⟹   XP_017447013
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,160,981 - 13,207,223 (+)NCBI
Rnor_6.038,449,733 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591525   ⟹   XP_017447014
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,817 - 13,207,223 (+)NCBI
Rnor_6.038,450,573 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591529   ⟹   XP_017447018
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,545 - 13,207,223 (+)NCBI
Rnor_6.038,450,349 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591531   ⟹   XP_017447020
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,819 - 13,207,223 (+)NCBI
Rnor_6.038,450,575 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591533   ⟹   XP_017447022
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,819 - 13,207,223 (+)NCBI
Rnor_6.038,450,575 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591534   ⟹   XP_017447023
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,818 - 13,207,223 (+)NCBI
Rnor_6.038,450,575 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591535   ⟹   XP_017447024
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,545 - 13,207,223 (+)NCBI
Rnor_6.038,450,349 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017591536   ⟹   XP_017447025
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,820 - 13,207,223 (+)NCBI
Rnor_6.038,450,576 - 8,495,764 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039104449   ⟹   XP_038960377
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,495 - 13,207,223 (+)NCBI
RefSeq Acc Id: XM_039104450   ⟹   XP_038960378
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,782 - 13,207,223 (+)NCBI
RefSeq Acc Id: XM_039104451   ⟹   XP_038960379
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,557 - 13,207,223 (+)NCBI
RefSeq Acc Id: XM_039104452   ⟹   XP_038960380
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,545 - 13,207,223 (+)NCBI
RefSeq Acc Id: XM_039104453   ⟹   XP_038960381
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,161,480 - 13,194,927 (+)NCBI
RefSeq Acc Id: XM_039104454   ⟹   XP_038960382
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,164,053 - 13,194,927 (+)NCBI
RefSeq Acc Id: XM_039104455   ⟹   XP_038960383
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,178,030 - 13,207,223 (+)NCBI
RefSeq Acc Id: XM_039104456   ⟹   XP_038960384
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,178,015 - 13,207,223 (+)NCBI
RefSeq Acc Id: XM_039104457   ⟹   XP_038960385
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,178,030 - 13,207,223 (+)NCBI
RefSeq Acc Id: XM_039104458   ⟹   XP_038960386
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2313,178,015 - 13,207,223 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001138477 (Get FASTA)   NCBI Sequence Viewer  
  NP_001386037 (Get FASTA)   NCBI Sequence Viewer  
  NP_001386038 (Get FASTA)   NCBI Sequence Viewer  
  NP_001386040 (Get FASTA)   NCBI Sequence Viewer  
  NP_001386041 (Get FASTA)   NCBI Sequence Viewer  
  NP_058909 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447008 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447009 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447010 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447012 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447013 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447014 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447018 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447020 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447022 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447023 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447024 (Get FASTA)   NCBI Sequence Viewer  
  XP_017447025 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960377 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960378 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960379 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960380 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960381 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960382 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960383 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960384 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960385 (Get FASTA)   NCBI Sequence Viewer  
  XP_038960386 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC08408 (Get FASTA)   NCBI Sequence Viewer  
  AAC53134 (Get FASTA)   NCBI Sequence Viewer  
  AAF80472 (Get FASTA)   NCBI Sequence Viewer  
  AAF80473 (Get FASTA)   NCBI Sequence Viewer  
  AAH78857 (Get FASTA)   NCBI Sequence Viewer  
  ABN09907 (Get FASTA)   NCBI Sequence Viewer  
  CAA64567 (Get FASTA)   NCBI Sequence Viewer  
  EDL93361 (Get FASTA)   NCBI Sequence Viewer  
  EDL93362 (Get FASTA)   NCBI Sequence Viewer  
  EDL93363 (Get FASTA)   NCBI Sequence Viewer  
  EDL93364 (Get FASTA)   NCBI Sequence Viewer  
  EDL93365 (Get FASTA)   NCBI Sequence Viewer  
  EDL93366 (Get FASTA)   NCBI Sequence Viewer  
  Q6AYX5 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_058909   ⟸   NM_017213
- Peptide Label: isoform 2
- UniProtKB: Q6AYX5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: NP_001138477   ⟸   NM_001145005
- Peptide Label: isoform 1
- UniProtKB: Q6AYX5 (UniProtKB/Swiss-Prot),   G3V7X0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017447013   ⟸   XM_017591524
- Peptide Label: isoform X6
- Sequence:
RefSeq Acc Id: XP_017447009   ⟸   XM_017591520
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017447012   ⟸   XM_017591523
- Peptide Label: isoform X5
- Sequence:
RefSeq Acc Id: XP_017447008   ⟸   XM_017591519
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_017447010   ⟸   XM_017591521
- Peptide Label: isoform X3
- Sequence:
RefSeq Acc Id: XP_017447018   ⟸   XM_017591529
- Peptide Label: isoform X9
- Sequence:
RefSeq Acc Id: XP_017447024   ⟸   XM_017591535
- Peptide Label: isoform X12
- UniProtKB: Q9JIZ3 (UniProtKB/Swiss-Prot),   Q6AYX5 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_017447014   ⟸   XM_017591525
- Peptide Label: isoform X7
- Sequence:
RefSeq Acc Id: XP_017447023   ⟸   XM_017591534
- Peptide Label: isoform X11
- Sequence:
RefSeq Acc Id: XP_017447020   ⟸   XM_017591531
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017447022   ⟸   XM_017591533
- Peptide Label: isoform X10
- Sequence:
RefSeq Acc Id: XP_017447025   ⟸   XM_017591536
- Peptide Label: isoform X13
- UniProtKB: A0A0H2UHM4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000041336   ⟸   ENSRNOT00000041921
RefSeq Acc Id: ENSRNOP00000020407   ⟸   ENSRNOT00000020407
RefSeq Acc Id: ENSRNOP00000020073   ⟸   ENSRNOT00000020073
RefSeq Acc Id: ENSRNOP00000049041   ⟸   ENSRNOT00000040457
RefSeq Acc Id: XP_038960381   ⟸   XM_039104453
- Peptide Label: isoform X15
RefSeq Acc Id: XP_038960377   ⟸   XM_039104449
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038960380   ⟸   XM_039104452
- Peptide Label: isoform X14
RefSeq Acc Id: XP_038960379   ⟸   XM_039104451
- Peptide Label: isoform X9
RefSeq Acc Id: XP_038960378   ⟸   XM_039104450
- Peptide Label: isoform X8
RefSeq Acc Id: XP_038960382   ⟸   XM_039104454
- Peptide Label: isoform X16
RefSeq Acc Id: XP_038960384   ⟸   XM_039104456
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038960386   ⟸   XM_039104458
- Peptide Label: isoform X18
RefSeq Acc Id: XP_038960383   ⟸   XM_039104455
- Peptide Label: isoform X17
RefSeq Acc Id: XP_038960385   ⟸   XM_039104457
- Peptide Label: isoform X18
RefSeq Acc Id: ENSRNOP00000086048   ⟸   ENSRNOT00000106575

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q6AYX5-F1-model_v2 AlphaFold Q6AYX5 1-825 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13691945
Promoter ID:EPDNEW_R2470
Type:multiple initiation site
Name:Odf2_1
Description:outer dense fiber of sperm tails 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R2471  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.038,450,340 - 8,450,400EPDNEW
RGD ID:13691946
Promoter ID:EPDNEW_R2471
Type:initiation region
Name:Odf2_2
Description:outer dense fiber of sperm tails 2
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Alternative Promoters:null; see alsoEPDNEW_R2470  
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.038,450,601 - 8,450,661EPDNEW

Strain Variation

Strain Sequence Variants (mRatBN7.2)
ACI/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
ACI/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN-Lx/CubMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/NHsdMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BN/SsN (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BUF/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH2/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
BXH3/CubMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
DA/OlaHsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/DuCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
F344/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FHH/EurMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE16/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
FXLE18/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
GK/FarMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB10/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB2/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB20/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB31/IpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
HXB4/IpcvMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LE/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEW/Crl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF10A/StmMcwi (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF11/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1A/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF1C/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF2B/Stm (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF3/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LEXF4/Stm (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LH/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LL/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
LN/MavRrrcAek (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Kwitek
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
M520/NRrrcMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MR/N (2020)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
MWF/Hsd (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
PVG/Seac (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Japan
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHR/OlalpcvMcwi (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SHRSP/A3NCrl (2019)
Visual CSV TAB Printer
Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SR/JrHsd (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Envigo
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
SS/JrHsdMcwi (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: MCW
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WAG/RijCrl (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WKY/NCrl (2019)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: Charles River
Description: Dr. Mindy Dwinell - Hybrid rat diversity program
WN/N (2020)
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Platform: GSPMC-Illumina-NovaSeq6000
Secondary Analysis: BWA_mem_v.0.7.17,_GATK_v.4.1.3.0
Breeder: NIH
Description: Dr. Mindy Dwinell - Hybrid rat diversity program

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:3229 AgrOrtholog
BioCyc Gene G2FUF-50242 BioCyc
Ensembl Genes ENSRNOG00000014584 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000020073 ENTREZGENE
  ENSRNOP00000020073.4 UniProtKB/TrEMBL
  ENSRNOP00000020407 ENTREZGENE
  ENSRNOP00000020407.5 UniProtKB/TrEMBL
  ENSRNOP00000041336 UniProtKB/Swiss-Prot
  ENSRNOP00000049041 ENTREZGENE
  ENSRNOP00000049041.4 UniProtKB/TrEMBL
  ENSRNOP00000086048 ENTREZGENE
  ENSRNOP00000086048.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000020073 ENTREZGENE
  ENSRNOT00000020073.8 UniProtKB/TrEMBL
  ENSRNOT00000020407 ENTREZGENE
  ENSRNOT00000020407.6 UniProtKB/TrEMBL
  ENSRNOT00000040457 ENTREZGENE
  ENSRNOT00000040457.5 UniProtKB/TrEMBL
  ENSRNOT00000041921 UniProtKB/Swiss-Prot
  ENSRNOT00000106575 ENTREZGENE
  ENSRNOT00000106575.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7112637 IMAGE-MGC_LOAD
InterPro Odf2-rel UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:29479 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:93518 IMAGE-MGC_LOAD
NCBI Gene 29479 ENTREZGENE
PANTHER PTHR23162 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Odf2 PhenoGen
UniProt A0A0H2UHM4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8I6GDL7_RAT UniProtKB/TrEMBL
  A0A8L2UM86_RAT UniProtKB/TrEMBL
  G3V7X0 ENTREZGENE, UniProtKB/TrEMBL
  ODFP2_RAT UniProtKB/Swiss-Prot, ENTREZGENE
  Q9JIZ3 ENTREZGENE
UniProt Secondary O70408 UniProtKB/Swiss-Prot
  P97575 UniProtKB/Swiss-Prot
  Q62693 UniProtKB/Swiss-Prot
  Q9JIZ3 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Odf2  outer dense fiber of sperm tails 2    sperm outer dense fiber major protein 2  Name updated 1299863 APPROVED
2002-06-10 Odf2  sperm outer dense fiber major protein 2      Name updated 70584 APPROVED
2001-07-23 Odf2  sperm outer dense fiber major protein 2      Name withdrawn 67952 WITHDRAWN
2001-07-23 Odf2  outer dense fiber of sperm tail 2      Name updated to reflect Human and Mouse nomenclature 67952 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed during spermatid development, highest expression is in elongating spermatids 69913