Pramex2 (PRAME like, X-linked 2) - Rat Genome Database

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Gene: Pramex2 (PRAME like, X-linked 2) Rattus norvegicus
Analyze
Symbol: Pramex2 (Ensembl: RGD1566159)
Name: PRAME like, X-linked 2 (Ensembl:similar to preferentially expressed antigen in melanoma-like 3)
RGD ID: 1566159
Description: INTERACTS WITH 4,4'-sulfonyldiphenol; bisphenol A; bisphenol F
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC503466; melanoma antigen preferentially expressed in tumors-like; RGD1566159; similar to preferentially expressed antigen in melanoma-like 3
RGD Orthologs
Mouse
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X102,677,034 - 102,684,425 (+)NCBIGRCr8
mRatBN7.2X98,383,864 - 98,391,159 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX98,383,836 - 98,390,372 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02102,407,173 - 102,422,428 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2102,415,503 - 102,422,799 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02122,153,238 - 122,157,936 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X122,725,446 - 122,733,838 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX99,372,539 - 99,421,715 (+)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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

Cellular Component
cytoplasm  (IBA)

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. GOA pipeline RGD automated data pipeline

Genomics

Comparative Map Data
Pramex2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X102,677,034 - 102,684,425 (+)NCBIGRCr8
mRatBN7.2X98,383,864 - 98,391,159 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX98,383,836 - 98,390,372 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.02102,407,173 - 102,422,428 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl2102,415,503 - 102,422,799 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.02122,153,238 - 122,157,936 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X122,725,446 - 122,733,838 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX99,372,539 - 99,421,715 (+)NCBICelera
Cytogenetic MapXq32NCBI
Pramex2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X134,171,599 - 134,175,117 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX134,171,602 - 134,174,963 (+)EnsemblGRCm39 Ensembl
GRCm38X135,270,850 - 135,274,368 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX135,270,853 - 135,274,214 (+)EnsemblGRCm38mm10GRCm38
MGSCv37X131,745,145 - 131,808,753 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X130,617,217 - 130,620,578 (+)NCBIMGSCv36mm8
CeleraX118,722,760 - 118,725,979 (-)NCBICelera
Cytogenetic MapXF1NCBI
cM MapX56.79NCBI

Variants

.
Variants in Pramex2
16 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:15
Count of miRNA genes:14
Interacting mature miRNAs:14
Transcripts:ENSRNOT00000029656
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X14843113120568734Rat
1598837Memor13Memory QTL 133.2exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X41052407146860749Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
61431Cia19Collagen induced arthritis QTL 194.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X65612192120568734Rat
724551Glom1Glomerulus QTL 12.80.0004kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli not directly contacting the kidney surface (CMO:0001002)X75294106120294106Rat
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between time of physical contact/close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X93956491138956491Rat


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
Low 10
Below cutoff 1 9 32 16 18 16 7 8 9 10 13 10 7

Sequence


RefSeq Acc Id: ENSRNOT00000029656   ⟹   ENSRNOP00000033486
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX98,383,836 - 98,390,372 (+)Ensembl
Rnor_6.0 Ensembl2102,415,503 - 102,422,799 (+)Ensembl
RefSeq Acc Id: XM_006232169   ⟹   XP_006232231
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X102,677,034 - 102,684,425 (+)NCBI
mRatBN7.2X98,383,864 - 98,391,159 (+)NCBI
Rnor_6.02102,415,664 - 102,422,428 (+)NCBI
Rnor_5.02122,153,238 - 122,157,936 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_006232231 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000033486
  ENSRNOP00000033486.5
RefSeq Acc Id: XP_006232231   ⟸   XM_006232169
- UniProtKB: F1M6Z3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000033486   ⟸   ENSRNOT00000029656

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M6Z3-F1-model_v2 AlphaFold F1M6Z3 1-462 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1566159 AgrOrtholog
BioCyc Gene G2FUF-1659 BioCyc
Ensembl Genes ENSRNOG00000037684 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000029656.6 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
InterPro L_dom-like UniProtKB/TrEMBL
KEGG Report rno:503466 UniProtKB/TrEMBL
NCBI Gene 503466 ENTREZGENE
PANTHER EXPRESSED SEQUENCE AV320801-RELATED UniProtKB/TrEMBL
  SIMILAR TO PREFERENTIALLY EXPRESSED ANTIGEN IN MELANOMA-LIKE 3 UniProtKB/TrEMBL
PhenoGen Pramex2 PhenoGen
RatGTEx ENSRNOG00000037684 RatGTEx
Superfamily-SCOP RNI-like UniProtKB/TrEMBL
UniProt F1M6Z3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-03-31 Pramex2  PRAME like, X-linked 2  RGD1566159  similar to preferentially expressed antigen in melanoma-like 3  Name and Symbol changed 629549 APPROVED
2008-04-30 RGD1566159  similar to preferentially expressed antigen in melanoma-like 3   RGD1566159_predicted  similar to preferentially expressed antigen in melanoma-like 3 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1566159_predicted  similar to preferentially expressed antigen in melanoma-like 3 (predicted)  LOC503466  similar to preferentially expressed antigen in melanoma-like 3  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC503466  similar to preferentially expressed antigen in melanoma-like 3      Symbol and Name status set to provisional 70820 PROVISIONAL