Podxl (podocalyxin-like) - Rat Genome Database

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Gene: Podxl (podocalyxin-like) Rattus norvegicus
Analyze
Symbol: Podxl
Name: podocalyxin-like
RGD ID: 621878
Description: Involved in negative regulation of cell adhesion and podocyte development. Located in apical plasma membrane; cell body; and slit diaphragm. Orthologous to human PODXL (podocalyxin like); INTERACTS WITH 17alpha-ethynylestradiol; 17beta-estradiol; 2,2,2-tetramine.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: PC; PCLP-1; podocalyxin; podocalyxin-like protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Podxlm1Mcwi  
Genetic Models: SS-Podxlm1Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8461,102,434 - 61,149,131 (-)NCBIGRCr8
mRatBN7.2460,135,124 - 60,181,829 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl460,135,109 - 60,181,899 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx465,105,003 - 65,151,589 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0461,020,810 - 61,067,401 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0459,423,159 - 59,469,750 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0458,829,049 - 58,893,353 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl458,829,060 - 58,893,170 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0458,581,513 - 58,645,671 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4458,611,904 - 58,658,598 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1458,888,035 - 58,934,728 (-)NCBI
Celera455,224,910 - 55,271,542 (-)NCBICelera
Cytogenetic Map4q22NCBI
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->4)-beta-D-glucan  (ISO)
1,1-dichloroethene  (ISO)
17alpha-ethynylestradiol  (EXP)
17beta-estradiol  (EXP,ISO)
2,2,2-tetramine  (EXP)
2,3,7,8-tetrachlorodibenzodioxine  (EXP,ISO)
2-methylcholine  (ISO)
3'-amino-3'-deoxy-N(6),N(6)-dimethyladenosine  (EXP,ISO)
3,3',4,4',5-pentachlorobiphenyl  (EXP)
3,3',5-triiodo-L-thyronine  (EXP)
3-isobutyl-1-methyl-7H-xanthine  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-fluorouracil  (ISO)
acetamide  (EXP)
acetic acid  (ISO)
acrylamide  (ISO)
aflatoxin B1  (ISO)
Aflatoxin B2 alpha  (ISO)
all-trans-retinoic acid  (ISO)
alpha-Zearalanol  (EXP)
amitrole  (EXP)
ammonium chloride  (EXP)
aristolochic acid A  (ISO)
arsane  (ISO)
arsenic atom  (ISO)
arsenite(3-)  (ISO)
arsenous acid  (ISO)
belinostat  (ISO)
benzo[a]pyrene  (ISO)
benzo[b]fluoranthene  (ISO)
benzo[e]pyrene  (ISO)
bis(2-chloroethyl) sulfide  (ISO)
bisphenol A  (EXP,ISO)
bleomycin A2  (EXP)
bromochloroacetic acid  (ISO)
butanal  (ISO)
cadmium dichloride  (ISO)
calcitriol  (ISO)
carbamazepine  (ISO)
carbon nanotube  (ISO)
carbonyl sulfide  (EXP)
cerium trichloride  (ISO)
chloroacetaldehyde  (ISO)
cidofovir anhydrous  (ISO)
cisplatin  (ISO)
clotrimazole  (EXP)
cobalt dichloride  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
cordycepin  (ISO)
corticosterone  (EXP)
CU-O LINKAGE  (ISO)
cyclosporin A  (ISO)
cytarabine  (ISO)
DDT  (ISO)
dexamethasone  (ISO)
dextran sulfate  (ISO)
diarsenic trioxide  (ISO)
dibenz[a,h]anthracene  (ISO)
diethylstilbestrol  (EXP)
dioxygen  (ISO)
dorsomorphin  (ISO)
doxorubicin  (ISO)
endosulfan  (EXP)
entinostat  (ISO)
ergosta-4,6,8(14),22-tetraen-3-one  (ISO)
fenofibrate  (EXP,ISO)
fenthion  (ISO)
folic acid  (ISO)
FR900359  (ISO)
gentamycin  (EXP)
glycidyl methacrylate  (ISO)
ibuprofen  (EXP)
ifosfamide  (ISO)
indometacin  (ISO)
lead(0)  (ISO)
lipopolysaccharide  (ISO)
losartan  (ISO)
menadione  (ISO)
metformin  (EXP)
methamphetamine  (EXP)
methapyrilene  (ISO)
methidathion  (ISO)
methimazole  (EXP)
methoxychlor  (EXP)
methylmercury chloride  (ISO)
mifepristone  (EXP)
N,N-diethyl-m-toluamide  (EXP)
N-methyl-N'-nitro-N-nitrosoguanidine  (ISO)
okadaic acid  (ISO)
ozone  (ISO)
Pachymic acid  (ISO)
panobinostat  (ISO)
paracetamol  (EXP,ISO)
pentanal  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
perfluorooctanoic acid  (EXP)
permethrin  (EXP)
progesterone  (EXP)
propanal  (ISO)
propiconazole  (EXP)
raloxifene  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
silicon dioxide  (ISO)
sodium arsenite  (ISO)
Soman  (EXP)
sotorasib  (ISO)
sulfadimethoxine  (EXP)
sunitinib  (ISO)
tamoxifen  (ISO)
temozolomide  (ISO)
testosterone  (ISO)
thioacetamide  (EXP)
titanium dioxide  (ISO)
toluene  (EXP)
trametinib  (ISO)
trichloroethene  (EXP)
triclosan  (ISO)
troglitazone  (EXP,ISO)
undecane  (EXP)
urethane  (ISO)
valproic acid  (EXP,ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function
protein binding  (IPI,ISO)

References

References - curated
# Reference Title Reference Citation
1. 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.
2. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Cell junction-associated proteins IQGAP1, MAGI-2, CASK, spectrins, and alpha-actinin are components of the nephrin multiprotein complex. Lehtonen S, etal., Proc Natl Acad Sci U S A. 2005 Jul 12;102(28):9814-9. Epub 2005 Jul 1.
4. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. The glomerular epithelial cell anti-adhesin podocalyxin associates with the actin cytoskeleton through interactions with ezrin. Orlando RA, etal., J Am Soc Nephrol. 2001 Aug;12(8):1589-98.
7. GOA pipeline RGD automated data pipeline
8. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
9. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
10. 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.
11. Loss of glomerular foot processes is associated with uncoupling of podocalyxin from the actin cytoskeleton. Takeda T, etal., J Clin Invest 2001 Jul;108(2):289-301.
12. Expression of podocalyxin inhibits cell-cell adhesion and modifies junctional properties in Madin-Darby canine kidney cells. Takeda T, etal., Mol Biol Cell 2000 Sep;11(9):3219-32.
Additional References at PubMed
PMID:10591182   PMID:15226400   PMID:15326289   PMID:15701716   PMID:15814834   PMID:16502470   PMID:17311105   PMID:18456258   PMID:18639524   PMID:19056867   PMID:19142011   PMID:19684413  
PMID:20395446   PMID:23376485   PMID:23533145   PMID:24419512   PMID:25003484   PMID:36934678  


Genomics

Comparative Map Data
Podxl
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8461,102,434 - 61,149,131 (-)NCBIGRCr8
mRatBN7.2460,135,124 - 60,181,829 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl460,135,109 - 60,181,899 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx465,105,003 - 65,151,589 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0461,020,810 - 61,067,401 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0459,423,159 - 59,469,750 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0458,829,049 - 58,893,353 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl458,829,060 - 58,893,170 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0458,581,513 - 58,645,671 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4458,611,904 - 58,658,598 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1458,888,035 - 58,934,728 (-)NCBI
Celera455,224,910 - 55,271,542 (-)NCBICelera
Cytogenetic Map4q22NCBI
PODXL
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh387131,500,271 - 131,556,628 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl7131,500,262 - 131,558,217 (-)EnsemblGRCh38hg38GRCh38
GRCh377131,185,030 - 131,241,387 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 367130,835,561 - 130,891,916 (-)NCBINCBI36Build 36hg18NCBI36
Build 347130,642,276 - 130,698,623NCBI
Celera7125,935,975 - 125,992,326 (-)NCBICelera
Cytogenetic Map7q32.3NCBI
HuRef7125,500,684 - 125,557,022 (-)NCBIHuRef
CHM1_17131,118,904 - 131,175,753 (-)NCBICHM1_1
T2T-CHM13v2.07132,817,863 - 132,874,188 (-)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v27130,524,660 - 130,580,998 (-)NCBI
Podxl
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39631,496,428 - 31,540,872 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl631,496,423 - 31,540,916 (-)EnsemblGRCm39 Ensembl
GRCm38631,519,493 - 31,563,937 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl631,519,488 - 31,563,981 (-)EnsemblGRCm38mm10GRCm38
MGSCv37631,469,493 - 31,513,937 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36631,449,656 - 31,494,074 (-)NCBIMGSCv36mm8
Celera631,507,104 - 31,551,603 (-)NCBICelera
Cytogenetic Map6A3.3NCBI
cM Map612.57NCBI
Podxl
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495541036,191,797 - 36,239,970 (+)NCBIChiLan1.0ChiLan1.0
PODXL
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v26168,324,493 - 168,380,853 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1720,334,735 - 20,391,077 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v07123,467,140 - 123,523,503 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.17135,980,561 - 136,036,236 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl7135,984,592 - 135,992,815 (-)Ensemblpanpan1.1panPan2
PODXL
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1145,614,006 - 5,625,360 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl145,590,478 - 5,625,360 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha145,275,959 - 5,287,312 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0145,352,258 - 5,363,616 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl145,313,162 - 5,363,616 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1145,516,244 - 5,566,654 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0145,261,499 - 5,311,827 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0145,404,060 - 5,454,526 (+)NCBIUU_Cfam_GSD_1.0
Podxl
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440511823,827,790 - 23,838,328 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365793,960,338 - 3,970,925 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PODXL
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11817,444,339 - 17,494,507 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21818,531,225 - 18,581,528 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PODXL
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.121100,139,902 - 100,194,013 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl21100,135,856 - 100,192,221 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660423,189,734 - 3,246,411 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Podxl
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247834,840,164 - 4,888,705 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247834,840,072 - 4,888,709 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Podxl
192 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:727
Count of miRNA genes:300
Interacting mature miRNAs:385
Transcripts:ENSRNOT00000016991
Prediction methods:Microtar, Miranda
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
5685012Bmd87Bone mineral density QTL 875.1tibia mineral mass (VT:1000283)bone mineral content (CMO:0001554)45664777678882945Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
61445Strs3Sensitivity to stroke QTL 33cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)44043338885433388Rat
6893678Bw108Body weight QTL 1082.60.006body mass (VT:0001259)body weight (CMO:0000012)44345797688457976Rat
5685009Bmd86Bone mineral density QTL 863.7tibia mineral mass (VT:1000283)bone mineral density (CMO:0001226)45664777678882945Rat
1331807Rf31Renal function QTL 312.988urine potassium amount (VT:0010539)urine potassium level (CMO:0000128)43952426474726312Rat
8552782Vie1Viral induced encephalitis QTL 126.4brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
634311Sach7Saccharin preference QTL 7taste sensitivity trait (VT:0001986)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)45711443281266970Rat
1358363Sradr3Stress Responsive Adrenal Weight QTL 36.19adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)457486946102486946Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
631261Tcas3Tongue tumor susceptibility QTL 36.88tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)41081417091360527Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
61336Bp21Blood pressure QTL 214.6arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711470578881294Rat
2313401Anxrr27Anxiety related response QTL 27aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)41793350862933508Rat
8655961Kidm43Kidney mass QTL 4318kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)436303261103194984Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
6909128Pancm4Pancreatic morphology QTL 411.35pancreas mass (VT:0010144)pancreas wet weight (CMO:0000626)42690728575585128Rat
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
8552801Bw143Body weight QTL 1437.3body mass (VT:0001259)change in body weight to body weight ratio (CMO:0002216)43443048482490359Rat
61475Aia2Adjuvant induced arthritis QTL 25.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)43950527573892441Rat
8694439Bw168Body weight QTL 1689.570.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)44043341485433414Rat
61412Pia2Pristane induced arthritis QTL 23.9joint integrity trait (VT:0010548)post-insult time to onset of experimental arthritis (CMO:0001450)42133334362278020Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
8655906Rf60Renal function QTL 603.8blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)42949419581006281Rat
619616Bp79Blood pressure QTL 790.0292arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)4521460278882945Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
6909122Insul22Insulin level QTL 224.63blood insulin amount (VT:0001560)plasma insulin level (CMO:0000342)42690728575585128Rat
8552809Vie5Viral induced encephalitis QTL 525.3brain integrity trait (VT:0010579)encephalitis incidence/prevalence measurement (CMO:0002361)43443048482490359Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
1558651Swd3Spike wave discharge measurement QTL 34.620.000024brain electrophysiology trait (VT:0010557)brain spike-and-wave discharge frequency (CMO:0001742)45843213392991462Rat
1358203Stl19Serum triglyceride level QTL 192.80.002blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)4521829465958103Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)456698790126192555Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
631546Bp86Blood pressure QTL 863.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)45711443291360801Rat
1300139Hrtrt6Heart rate QTL 62.85heart pumping trait (VT:2000009)heart rate (CMO:0000002)439524264116179656Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
12798520Anxrr55Anxiety related response QTL 554.450.01locomotor behavior trait (VT:0001392)number of rearing movements with lid-pushing in an experimental apparatus (CMO:0002715)432583980114627242Rat
4889969Bss96Bone structure and strength QTL 964.9tibia size trait (VT:0100001)tibia cortical bone volume (CMO:0001725)45664777678882945Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
4889972Bss97Bone structure and strength QTL 975.6tibia size trait (VT:0100001)tibia total bone volume (CMO:0001724)45664777678882945Rat
631671Iddm11Insulin dependent diabetes mellitus QTL 113.60.0012blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)45863587778886137Rat

Markers in Region
D4Rat132  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2460,152,695 - 60,152,815 (+)MAPPERmRatBN7.2
Rnor_6.0458,846,621 - 58,846,740NCBIRnor6.0
Rnor_5.0458,599,093 - 58,599,212UniSTSRnor5.0
RGSC_v3.4458,629,467 - 58,629,586UniSTSRGSC3.4
RGSC_v3.4458,629,466 - 58,629,586RGDRGSC3.4
RGSC_v3.1458,905,597 - 58,905,716RGD
Celera455,242,435 - 55,242,554UniSTS
RH 3.4 Map4350.1RGD
RH 3.4 Map4350.1UniSTS
RH 2.0 Map4400.7RGD
SHRSP x BN Map432.83RGD
FHH x ACI Map438.23RGD
Cytogenetic Map4q22UniSTS
RH137316  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2460,135,351 - 60,135,550 (+)MAPPERmRatBN7.2
Rnor_6.0458,829,286 - 58,829,483NCBIRnor6.0
Rnor_5.0458,581,758 - 58,581,955UniSTSRnor5.0
RGSC_v3.4458,612,132 - 58,612,329UniSTSRGSC3.4
Celera455,225,138 - 55,225,335UniSTS
RH 3.4 Map4347.41UniSTS
Cytogenetic Map4q22UniSTS
RH144252  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2460,162,454 - 60,162,635 (+)MAPPERmRatBN7.2
Rnor_6.0458,856,381 - 58,856,561NCBIRnor6.0
Rnor_5.0458,608,853 - 58,609,033UniSTSRnor5.0
RGSC_v3.4458,639,227 - 58,639,407UniSTSRGSC3.4
Celera455,252,194 - 55,252,374UniSTS
RH 3.4 Map4353.2UniSTS
Cytogenetic Map4q22UniSTS


Genetic Models
This gene Podxl is modified in the following models/strains:
SS-Podxlm1Mcwi    


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
Medium 141 124 72 27 72 22 24 217 113 97 53 18
Low 21 103 75 42 75 14 21 33 48 6
Below cutoff

Sequence


Ensembl Acc Id: ENSRNOT00000016991   ⟹   ENSRNOP00000016991
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl460,135,109 - 60,146,304 (-)Ensembl
Rnor_6.0 Ensembl458,829,060 - 58,875,753 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000077406   ⟹   ENSRNOP00000075234
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl460,135,109 - 60,181,899 (-)Ensembl
Rnor_6.0 Ensembl458,829,060 - 58,893,170 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000087241   ⟹   ENSRNOP00000072286
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl458,832,535 - 58,881,045 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000102804   ⟹   ENSRNOP00000076632
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl460,135,109 - 60,146,889 (-)Ensembl
RefSeq Acc Id: NM_138848   ⟹   NP_620203
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8461,102,434 - 61,149,131 (-)NCBI
mRatBN7.2460,135,124 - 60,181,829 (-)NCBI
Rnor_6.0458,829,058 - 58,875,753 (-)NCBI
Rnor_5.0458,581,513 - 58,645,671 (-)NCBI
RGSC_v3.4458,611,904 - 58,658,598 (-)RGD
Celera455,224,910 - 55,271,542 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_620203 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAF14238 (Get FASTA)   NCBI Sequence Viewer  
  AAH70886 (Get FASTA)   NCBI Sequence Viewer  
  BAA78375 (Get FASTA)   NCBI Sequence Viewer  
  EDM15282 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000016991.5
  ENSRNOP00000075234.1
  ENSRNOP00000076632.1
GenBank Protein Q9WTQ2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_620203   ⟸   NM_138848
- Peptide Label: precursor
- UniProtKB: Q6IRK7 (UniProtKB/Swiss-Prot),   Q9R068 (UniProtKB/Swiss-Prot),   Q9WTQ2 (UniProtKB/Swiss-Prot),   A6IEJ5 (UniProtKB/TrEMBL),   A0A8I5YBT0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000075234   ⟸   ENSRNOT00000077406
Ensembl Acc Id: ENSRNOP00000016991   ⟸   ENSRNOT00000016991
Ensembl Acc Id: ENSRNOP00000072286   ⟸   ENSRNOT00000087241
Ensembl Acc Id: ENSRNOP00000076632   ⟸   ENSRNOT00000102804

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9WTQ2-F1-model_v2 AlphaFold Q9WTQ2 1-485 view protein structure

Transcriptome

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

Promoters
RGD ID:13692946
Promoter ID:EPDNEW_R3469
Type:initiation region
Name:Podxl_1
Description:podocalyxin-like
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0458,893,241 - 58,893,301EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:621878 AgrOrtholog
BioCyc Gene G2FUF-45304 BioCyc
Ensembl Genes ENSRNOG00000012495 Ensembl, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000016991.8 UniProtKB/TrEMBL
  ENSRNOT00000077406.2 UniProtKB/Swiss-Prot
  ENSRNOT00000102804.1 UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7098164 IMAGE-MGC_LOAD
InterPro CD34/Podocalyxin UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PODXL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:192181 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:91490 IMAGE-MGC_LOAD
NCBI Gene 192181 ENTREZGENE
PANTHER PODOCALYXIN UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12067 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam CD34_antigen UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Podxl PhenoGen
PIRSF Podocalyxin-like_p1 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000012495 RatGTEx
UniProt A0A8I5YBT0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8L2Q8D7_RAT UniProtKB/TrEMBL
  A6IEJ5 ENTREZGENE, UniProtKB/TrEMBL
  PODXL_RAT UniProtKB/Swiss-Prot
  Q6IRK7 ENTREZGENE
  Q9R068 ENTREZGENE
  Q9WTQ2 ENTREZGENE
UniProt Secondary Q6IRK7 UniProtKB/Swiss-Prot
  Q9R068 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-02-26 Podxl  podocalyxin-like      Symbol and Name status set to approved 625702 APPROVED
2002-08-07 Podxl  podocalyxin-like      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization transmembrane sialoprotein localized to glomerular epithelium 633592
gene_regulation inhibition requires sialic acid 633592