Pom121 (POM121 transmembrane nucleoporin) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Pom121 (POM121 transmembrane nucleoporin) Rattus norvegicus
Analyze
Symbol: Pom121
Name: POM121 transmembrane nucleoporin
RGD ID: 620680
Description: A structural constituent of nuclear pore. Involved in nuclear pore organization. Part of nuclear pore. Orthologous to several human genes including POM121 (POM121 transmembrane nucleoporin) and POM121C (POM121 transmembrane nucleoporin C); PARTICIPATES IN RNA transport pathway; INTERACTS WITH 2,4-dinitrotoluene; 2,6-dinitrotoluene; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: integral membrane glycoprotein; nuclear envelope pore membrane protein POM 121; nuclear pore membrane glycoprotein 121; nuclear pore membrane glycoprotein 121 kD; nuclear pore membrane protein 121; nucleoporin Nup121; P145; POM121 membrane glycoprotein; pore membrane protein of 121 kDa
RGD Orthologs
Human
Mouse
Bonobo
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81226,913,513 - 26,930,861 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1226,913,513 - 26,930,861 (+)EnsemblGRCr8
mRatBN7.21221,273,713 - 21,294,299 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1221,276,913 - 21,294,294 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1222,418,767 - 22,436,099 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01223,031,099 - 23,048,431 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01222,097,579 - 22,114,911 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01224,316,575 - 24,341,943 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1224,324,590 - 24,341,938 (+)Ensemblrn6Rnor6.0
Rnor_5.01226,321,893 - 26,339,241 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41222,431,380 - 22,448,734 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1223,039,491 - 23,056,839 (+)NCBICelera
RGSC_v3.11222,421,806 - 22,439,155 (+)NCBI
Cytogenetic Map12q12NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
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. An integral membrane protein of the pore membrane domain of the nuclear envelope contains a nucleoporin-like region. Hallberg E, etal., J Cell Biol 1993 Aug;122(3):513-21.
3. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
4. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
5. GOA pipeline RGD automated data pipeline
6. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
7. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:11448991   PMID:14729472   PMID:21727197  


Genomics

Comparative Map Data
Pom121
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81226,913,513 - 26,930,861 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1226,913,513 - 26,930,861 (+)EnsemblGRCr8
mRatBN7.21221,273,713 - 21,294,299 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1221,276,913 - 21,294,294 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1222,418,767 - 22,436,099 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01223,031,099 - 23,048,431 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01222,097,579 - 22,114,911 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01224,316,575 - 24,341,943 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1224,324,590 - 24,341,938 (+)Ensemblrn6Rnor6.0
Rnor_5.01226,321,893 - 26,339,241 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41222,431,380 - 22,448,734 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1223,039,491 - 23,056,839 (+)NCBICelera
RGSC_v3.11222,421,806 - 22,439,155 (+)NCBI
Cytogenetic Map12q12NCBI
POM121
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38772,879,357 - 72,951,459 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl772,879,349 - 72,951,440 (+)Ensemblhg38GRCh38
GRCh37772,349,928 - 72,421,998 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36771,987,872 - 72,056,774 (+)NCBIBuild 36Build 36hg18NCBI36
Celera769,680,847 - 69,700,169 (-)NCBICelera
Celera768,193,320 - 68,195,518 (+)NCBICelera
Cytogenetic Map7q11.23NCBI
HuRef770,188,428 - 70,199,822 (-)NCBIHuRef
CHM1_1772,439,357 - 72,511,462 (+)NCBICHM1_1
T2T-CHM13v2.0774,107,626 - 74,179,689 (+)NCBIT2T-CHM13v2.0
CRA_TCAGchr7v2771,682,728 - 71,754,801 (+)NCBI
Pom121
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm395135,404,994 - 135,433,587 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl5135,404,995 - 135,423,400 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm385135,376,140 - 135,404,841 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl5135,376,141 - 135,394,546 (-)Ensemblmm10GRCm38
MGSCv375135,852,010 - 135,870,416 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv365135,660,768 - 135,679,137 (-)NCBIMGSCv36mm8
Celera5132,387,842 - 132,406,248 (-)NCBICelera
Cytogenetic Map5G2NCBI
cM Map575.16NCBI
LOC100983753
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2689,286,883 - 89,346,154 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan17137,584,773 - 137,610,783 (+)NCBINHGRI_mPanPan1
PanPan1.1780,428,639 - 80,454,371 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl780,428,068 - 80,455,352 (+)EnsemblpanPan2panpan1.1

Variants

.
Variants in Pom121
173 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:225
Count of miRNA genes:166
Interacting mature miRNAs:188
Transcripts:ENSRNOT00000001968
Prediction methods:Miranda, Rnahybrid
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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631560Apr1Acute phase response QTL 16.1orosomucoid 1 amount (VT:0010541)plasma orosomucoid 1 level (CMO:0001467)122480502252308831Rat
70213Niddm27Non-insulin dependent diabetes mellitus QTL 273.72blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121120049452308831Rat
2306789Ean6Experimental allergic neuritis QTL 64.9nervous system integrity trait (VT:0010566)experimental autoimmune neuritis severity score (CMO:0001528)12129775522Rat
8552964Pigfal17Plasma insulin-like growth factor 1 level QTL 173.5blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)121120049452308831Rat
7411641Foco19Food consumption QTL 1927.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)121120049452308831Rat
7411643Foco20Food consumption QTL 200.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)122598935552308831Rat
5684888Pia42Pristane induced arthritis QTL 42joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12348941648489416Rat
1331739Hrtrt14Heart rate QTL 143.56232heart pumping trait (VT:2000009)heart rate (CMO:0000002)12138687564Rat
1641928Alcrsp5Alcohol response QTL 5response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)121847304152308831Rat
8552912Pigfal6Plasma insulin-like growth factor 1 level QTL 65blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)121120049752308831Rat
1549829Scl48Serum cholesterol level QTL 485blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)121526424852308831Rat
61331Eau2Experimental allergic uveoretinitis QTL 20.0005uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)12133700600Rat
10059594Kidm46Kidney mass QTL 463.790.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)121174352852308831Rat
8552918Pigfal7Plasma insulin-like growth factor 1 level QTL 7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)121120049452308831Rat
2293684Bmd26Bone mineral density QTL 264.40.0002femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)12138635130Rat
6893681Bw109Body weight QTL 1092.30.004body mass (VT:0001259)body weight (CMO:0000012)12128133365Rat
1302792Scl21Serum cholesterol level QTL 213.80.0011blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)121223300030490641Rat
61404Bw120Body weight QTL 1205.1body mass (VT:0001259)body mass index (BMI) (CMO:0000105)121746497946784661Rat
1300174Bw15Body weight QTL 152.93body mass (VT:0001259)body weight loss (CMO:0001399)12128606299Rat
1331786Kidm11Kidney mass QTL 113.571kidney mass (VT:0002707)right kidney wet weight (CMO:0000082)121618743852308831Rat
1331787Rf41Renal function QTL 412.998kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)12133700556Rat
2293699Bss49Bone structure and strength QTL 495.610.0001lumbar vertebra size trait (VT:0010518)lumbar vertebra trabecular cross-sectional area (CMO:0001692)121613502952308831Rat
1331761Bp218Blood pressure QTL 2182.973arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121618743851213550Rat
1331763Wbc2White blood cell count QTL 23.162leukocyte quantity (VT:0000217)total white blood cell count (CMO:0000365)121120049452308831Rat
61416Pia4Pristane induced arthritis QTL 48.4joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)121874946936488809Rat
7411547Bw129Body weight QTL 1290.001body mass (VT:0001259)body weight gain (CMO:0000420)61120049452308831Rat
7387292Kidm42Kidney mass QTL 423.030.0004kidney mass (VT:0002707)left kidney wet weight (CMO:0000083)12141361854Rat
61421Cia12Collagen induced arthritis QTL 124.6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)121874946934312613Rat
1298081Cia25Collagen induced arthritis QTL 254.7joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)12274769447747694Rat
2303569Gluco44Glucose level QTL 442blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)121847304152308831Rat
2303568Bw88Body weight QTL 883body mass (VT:0001259)body weight (CMO:0000012)12128606299Rat
2303575Insul14Insulin level QTL 144blood insulin amount (VT:0001560)blood insulin level (CMO:0000349)12308718048087180Rat
7411588Foco6Food consumption QTL 60.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)121120049452308831Rat
7243862Mcs30Mammary carcinoma susceptibility QTL 308.62mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)12563330650633306Rat
2300186Bmd59Bone mineral density QTL 597.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)121613502952308831Rat
2293086Iddm30Insulin dependent diabetes mellitus QTL 303.82blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)12790162533938215Rat
7411597Foco10Food consumption QTL 100.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)121120049452308831Rat
11530002Bss119Bone structure and strength QTL 11916.394e-17lumbar vertebra area (VT:0010570)lumbar vertebra area (CMO:0001688)122651003826983303Rat
1331755Bp219Blood pressure QTL 2193.041arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)121618743833700556Rat

Markers in Region
RH130496  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21221,294,307 - 21,294,496 (+)MAPPERmRatBN7.2
Rnor_6.01224,341,952 - 24,342,140NCBIRnor6.0
Rnor_5.01226,339,255 - 26,339,443UniSTSRnor5.0
RGSC_v3.41222,448,748 - 22,448,936UniSTSRGSC3.4
Celera1223,056,853 - 23,057,041UniSTS
RH 3.4 Map12338.9UniSTS
Cytogenetic Map12q12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
circulatory system
ectoderm
endocrine system
endoderm
exocrine system
hemolymphoid system
hepatobiliary system
integumental system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
sensory system
visual system
16 12 67 161 91 90 59 92 59 6 356 192 11 140 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000001968   ⟹   ENSRNOP00000001968
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1226,913,513 - 26,930,861 (+)Ensembl
mRatBN7.2 Ensembl1221,276,945 - 21,294,294 (+)Ensembl
Rnor_6.0 Ensembl1224,324,590 - 24,341,938 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000116640   ⟹   ENSRNOP00000088550
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1226,913,518 - 26,930,861 (+)Ensembl
mRatBN7.2 Ensembl1221,276,913 - 21,294,294 (+)Ensembl
RefSeq Acc Id: NM_053622   ⟹   NP_446074
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81226,913,513 - 26,930,861 (+)NCBI
mRatBN7.21221,276,945 - 21,294,294 (+)NCBI
Rnor_6.01224,324,590 - 24,341,938 (+)NCBI
Rnor_5.01226,321,893 - 26,339,241 (+)NCBI
RGSC_v3.41222,431,380 - 22,448,734 (+)RGD
Celera1223,039,491 - 23,056,839 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_446074 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein CAA79725 (Get FASTA)   NCBI Sequence Viewer  
  CAA79726 (Get FASTA)   NCBI Sequence Viewer  
  EDM13370 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000001968
GenBank Protein P52591 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_446074   ⟸   NM_053622
- UniProtKB: P52591 (UniProtKB/Swiss-Prot),   G3V659 (UniProtKB/TrEMBL),   A6J0D1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000001968   ⟸   ENSRNOT00000001968
Ensembl Acc Id: ENSRNOP00000088550   ⟸   ENSRNOT00000116640

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P52591-F1-model_v2 AlphaFold P52591 1-1199 view protein structure

Transcriptome

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

Promoters
RGD ID:13698552
Promoter ID:EPDNEW_R9077
Type:initiation region
Name:Pom121_1
Description:POM121 transmembrane nucleoporin
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_6.01224,324,569 - 24,324,629EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620680 AgrOrtholog
BioCyc Gene G2FUF-19620 BioCyc
Ensembl Genes ENSRNOG00000001449 Ensembl, ENTREZGENE
Ensembl Transcript ENSRNOT00000001968 ENTREZGENE
InterPro Nucleoporin UniProtKB/Swiss-Prot
KEGG Report rno:113975 UniProtKB/Swiss-Prot
NCBI Gene 113975 ENTREZGENE
PANTHER NUCLEAR ENVELOPE PORE MEMBRANE PROTEIN POM 121 UniProtKB/Swiss-Prot
  PTHR23193 UniProtKB/Swiss-Prot
Pfam POM121 UniProtKB/Swiss-Prot
PhenoGen Pom121 PhenoGen
RatGTEx ENSRNOG00000001449 RatGTEx
UniProt A0A8I6A8B2_RAT UniProtKB/TrEMBL
  A6J0D1 ENTREZGENE, UniProtKB/TrEMBL
  G3V659 ENTREZGENE, UniProtKB/TrEMBL
  P52591 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2012-10-10 Pom121  POM121 transmembrane nucleoporin  Pom121  POM121 membrane glycoprotein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2011-08-02 Pom121  POM121 membrane glycoprotein  Pom121  nuclear pore membrane protein 121  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-22 Pom121  nuclear pore membrane protein 121  Pom121  nuclear pore membrane glycoprotein 121  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Pom121  nuclear pore membrane glycoprotein 121    nuclear pore membrane glycoprotein 121 kD  Name updated 1299863 APPROVED
2002-08-07 Pom121        Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_domains contains a repetitive pentapeptide motif XFXFG characteristic of several nucleoporins 729484