Podnl1 (podocan-like 1) - Rat Genome Database
Submit Data |  Help |  Video Tutorials |  News |  Publications |  FTP Download |  REST API |  Citing RGD |  Contact   
Gene: Podnl1 (podocan-like 1) Mus musculus
Analyze
Symbol: Podnl1
Name: podocan-like 1
RGD ID: 1317127
MGI Page MGI
Description: Localizes to collagen-containing extracellular matrix. Orthologous to human PODNL1 (podocan like 1); INTERACTS WITH 1,2-dimethylhydrazine; silicon dioxide; trimellitic anhydride.
Type: protein-coding
RefSeq Status: VALIDATED
Also known as: 5832418A03Rik; Gm506; podocan-like protein 1
RGD Orthologs
Human
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm38 - Mouse Genome Assembly GRCm38
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39884,852,557 - 84,869,620 (+)NCBIGRCm39mm39
GRCm38884,125,928 - 84,142,991 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl884,125,989 - 84,132,527 (+)EnsemblGRCm38mm10GRCm38
MGSCv37886,649,888 - 86,656,416 (+)NCBIGRCm37mm9NCBIm37
MGSCv36887,016,094 - 87,022,672 (+)NCBImm8
Celera888,426,410 - 88,432,912 (+)NCBICelera
Cytogenetic Map8C2NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

References

Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12477932   PMID:16141072   PMID:16141073   PMID:21672516   PMID:21873635  


Genomics

Comparative Map Data
Podnl1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39884,852,557 - 84,869,620 (+)NCBIGRCm39mm39
GRCm38884,125,928 - 84,142,991 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl884,125,989 - 84,132,527 (+)EnsemblGRCm38mm10GRCm38
MGSCv37886,649,888 - 86,656,416 (+)NCBIGRCm37mm9NCBIm37
MGSCv36887,016,094 - 87,022,672 (+)NCBImm8
Celera888,426,410 - 88,432,912 (+)NCBICelera
Cytogenetic Map8C2NCBI
PODNL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38.p13 Ensembl1913,931,187 - 13,953,392 (-)EnsemblGRCh38hg38GRCh38
GRCh381913,931,187 - 13,953,383 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh371914,042,000 - 14,064,204 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361913,904,167 - 13,910,289 (-)NCBINCBI36hg18NCBI36
Celera1913,935,745 - 13,957,830 (-)NCBI
Cytogenetic Map19p13.12NCBI
HuRef1913,613,296 - 13,635,472 (-)NCBIHuRef
CHM1_11914,042,604 - 14,064,744 (-)NCBICHM1_1
Podnl1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rnor_6.01925,240,001 - 25,246,583 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1925,239,674 - 25,246,525 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01936,217,189 - 36,223,683 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41925,711,112 - 25,718,223 (-)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.11925,716,193 - 25,722,205 (-)NCBI
Celera1923,575,604 - 23,582,182 (-)NCBICelera
Cytogenetic Map19q11NCBI
Podnl1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541532,683,414 - 32,688,586 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495541532,683,256 - 32,688,736 (-)NCBIChiLan1.0ChiLan1.0
PODNL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11914,223,455 - 14,244,705 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1914,224,233 - 14,244,705 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01913,493,464 - 13,500,577 (-)NCBIMhudiblu_PPA_v0panPan3
PODNL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1 Ensembl2048,526,786 - 48,548,689 (+)EnsemblCanFam3.1canFam3CanFam3.1
CanFam3.12048,543,572 - 48,548,689 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Podnl1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
SpeTri2.0NW_0049366592,627,229 - 2,632,251 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
PODNL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl265,230,197 - 65,235,306 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1265,229,987 - 65,235,319 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2265,503,713 - 65,509,033 (+)NCBISscrofa10.2Sscrofa10.2susScr3
PODNL1
(Chlorocebus sabaeus - African green monkey)
Vervet AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1612,589,983 - 12,599,647 (-)NCBI
Podnl1
(Heterocephalus glaber - naked mole-rat)
Molerat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046249011,204,688 - 1,211,892 (-)NCBI


QTLs in Region (GRCm38)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
4140967Bmd39_mbone mineral density 39 (mouse)Not determined832016544117238700Mouse
1558875Eae31_mexperimental allergic encephalomyelitis susceptibility 31 (mouse)Not determined834642776114837007Mouse
1301013Capsq4_mcapsaicin sensitivity related QTL 4 (mouse)Not determined83616300092728652Mouse
27226754Femd6_mfemur midshaft diameter 6, 10 week (mouse)837400000109600000Mouse
12904744Carcdq1_mcardiac collagen deposition QTL 1 (mouse)83970925694689598Mouse
14700686Civq3_mcerebral infarct volume QTL 3 (mouse)85188219185882191Mouse
1301506Aevm1_mautoimmune extremity vasculitis in MRL mice 1 (mouse)Not determined85428781788287993Mouse
1301952Im3_mimmunoregulatory 3 (mouse)Not determined85470661488706763Mouse
10412287Carg3_mCandida albicans resistance gene 3 (mouse)Not determined85554502889545028Mouse
11353828Gf7_mgonadal fat pad weight 7 (mouse)85820147992201479Mouse
10043975Obq31_mobesity QTL 31 (mouse)Not determined85840977692409776Mouse
1301688Orch6_mautoimmune orchitis resistance 6 (mouse)Not determined86078685094786976Mouse
4141285Tgq18_mtriglyceride QTL 18 (mouse)Not determined6346010797460107Mouse
4141797Skmw16_mskeletal muscle weight 16 (mouse)Not determined86393954797939696Mouse
1357787Vtbt5_mvertebral trabecular bone trait 5 (mouse)Not determined86535776899357920Mouse
10043992Hbnr11_mHeligmosomoides bakeri nematode resistance 11 (mouse)Not determined86560020799600347Mouse
1301767Fcsa2_mfemoral cross-sectional area 2 (mouse)Not determined870305375104305495Mouse
4142283Imraq2_mimmune response to AAV2 QTL 2 (mouse)Not determined870305375104305495Mouse
1558780Idd22_minsulin dependent diabetes susceptibility 22 (mouse)Not determined871102903105103009Mouse
4141395Char2a_mP. chabaudi malaria resistance QTL 2a (mouse)Not determined7113678390202598Mouse
4142023W3q5_mweight 3 weeks QTL 5 (mouse)Not determined71287817123895615Mouse
1357708Orq1_movulation rate QTL 1 (mouse)Not determined871287817123895615Mouse
1301872Cd4ts3_mCD4 T cell subset 3 (mouse)Not determined871396181105396393Mouse
1300920Pitm3_mprion incubation time 3 (mouse)Not determined873202495107202598Mouse
27095912Pglq14_mpelvic girdle length QTL 14, 16 week (mouse)873400000126100000Mouse
1558890Lith18_mlithogenic gene 18 (mouse)Not determined875675517109675623Mouse
1357470Obq16_mobesity QTL 16 (mouse)Not determined875685348109685497Mouse
1301808Nhdlq1_mnon-HDL QTL 1 (mouse)Not determined875685348109685497Mouse
1301874Hdlq16_mHDL QTL 16 (mouse)Not determined875685348109685497Mouse
10412234Nhdlq14_mnon-HDL QTL 14 (mouse)Not determined875685348109685497Mouse
1301099Cbm2_mcerebellum weight 2 (mouse)Not determined878518613112518703Mouse
1301581Char2_mP. chabaudi malaria resistance QTL 2 (mouse)Not determined879082178113082403Mouse
12904012Cfq10_mconditioned fear QTL 10 (mouse)88006677589014359Mouse
10755530Wbc2_mwhite blood cell count 2 (mouse)881092664115092664Mouse
10755519Wbc1_mwhite blood cell count 1 (mouse)881619151115619151Mouse

miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:346
Count of miRNA genes:272
Interacting mature miRNAs:298
Transcripts:ENSMUST00000093380, ENSMUST00000147175
Prediction methods: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


Sequence


Reference Sequences
RefSeq Acc Id: ENSMUST00000093380   ⟹   ENSMUSP00000091073
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl884,125,989 - 84,132,527 (+)Ensembl
RefSeq Acc Id: ENSMUST00000147175
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm38.p6 Ensembl884,127,818 - 84,132,516 (+)Ensembl
RefSeq Acc Id: NM_001013384   ⟹   NP_001013402
RefSeq Status: VALIDATED
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39884,852,618 - 84,859,146 (+)NCBI
GRCm38884,125,989 - 84,132,517 (+)NCBI
MGSCv37886,649,888 - 86,656,416 (+)RGD
Celera888,426,410 - 88,432,912 (+)RGD
cM Map8 ENTREZGENE
Sequence:
RefSeq Acc Id: XM_011248377   ⟹   XP_011246679
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39884,852,557 - 84,869,620 (+)NCBI
GRCm38884,125,928 - 84,142,991 (+)NCBI
Sequence:
RefSeq Acc Id: XM_011248378   ⟹   XP_011246680
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39884,853,861 - 84,859,196 (+)NCBI
GRCm38884,127,232 - 84,132,567 (+)NCBI
Sequence:
RefSeq Acc Id: XM_017312815   ⟹   XP_017168304
RefSeq Status:
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39884,853,981 - 84,859,196 (+)NCBI
GRCm38884,127,350 - 84,132,567 (+)NCBI
Sequence:
Reference Sequences
RefSeq Acc Id: NP_001013402   ⟸   NM_001013384
- Peptide Label: precursor
- UniProtKB: Q6P3Y9 (UniProtKB/Swiss-Prot)
- Sequence:
RefSeq Acc Id: XP_011246679   ⟸   XM_011248377
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_011246680   ⟸   XM_011248378
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: XP_017168304   ⟸   XM_017312815
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSMUSP00000091073   ⟸   ENSMUST00000093380

Promoters
RGD ID:8667647
Promoter ID:EPDNEW_M11854
Type:initiation region
Name:Podnl1_1
Description:Mus musculus podocan-like 1 , 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
GRCm38884,126,040 - 84,126,100EPDNEW
RGD ID:6843623
Promoter ID:MM_KWN:55054
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Lung
Transcripts:OTTMUST00000075716
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv36886,650,736 - 86,651,236 (+)MPROMDB

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:2685352 AgrOrtholog
Ensembl Genes ENSMUSG00000012889 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Protein ENSMUSP00000091073 ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000093380 ENTREZGENE, UniProtKB/Swiss-Prot
Gene3D-CATH 3.80.10.10 UniProtKB/Swiss-Prot
InterPro Leu-rich_rpt UniProtKB/Swiss-Prot
  Leu-rich_rpt_typical-subtyp UniProtKB/Swiss-Prot
  LRR_dom_sf UniProtKB/Swiss-Prot
KEGG Report mmu:244550 UniProtKB/Swiss-Prot
MGD MGI:2685352 ENTREZGENE
NCBI Gene 244550 ENTREZGENE
Pfam LRR_1 UniProtKB/Swiss-Prot
  LRR_8 UniProtKB/Swiss-Prot
PhenoGen Podnl1 PhenoGen
PROSITE LRR UniProtKB/Swiss-Prot
SMART LRR_TYP UniProtKB/Swiss-Prot
UniGene Mm.334654 ENTREZGENE
UniProt PONL1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE
UniProt Secondary A0A0R4J142 UniProtKB/Swiss-Prot
  A1X874 UniProtKB/Swiss-Prot