Pramel (preferentially expressed antigen in melanoma-like) - Rat Genome Database

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Gene: Pramel (preferentially expressed antigen in melanoma-like) Rattus norvegicus
Analyze
Symbol: Pramel
Name: preferentially expressed antigen in melanoma-like
RGD ID: 1561307
Description: Predicted to be active in cytoplasm.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: hypothetical protein LOC503464; leucine-rich repeat-containing protein PRAME-like; LOC100910698; LOC503464; melanoma antigen preferentially expressed in tumors-like; RGD1561307; similar to preferentially expressed antigen in melanoma-like 3; uncharacterized protein LOC503464
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X102,744,421 - 102,780,220 (+)NCBIGRCr8
mRatBN7.2X98,451,199 - 98,486,998 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX98,482,602 - 98,485,746 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX100,141,671 - 100,144,413 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X103,657,693 - 103,660,435 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X101,169,897 - 101,172,639 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X105,937,118 - 105,939,860 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX106,002,416 - 106,005,146 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 EnsemblX105,937,118 - 105,939,860 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X105,823,281 - 105,826,023 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X122,627,200 - 122,629,942 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
CeleraX99,508,750 - 99,511,492 (+)NCBICelera
Cytogenetic MapXq32NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Pramel
105 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:100
Count of miRNA genes:69
Interacting mature miRNAs:72
Transcripts:ENSRNOT00000045591, ENSRNOT00000052196
Prediction methods:Microtar, Miranda, Pita, 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

reproductive system
High
Medium
Low 3
Below cutoff 17

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000045591   ⟹   ENSRNOP00000040212
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX105,937,118 - 105,939,860 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000052196   ⟹   ENSRNOP00000045013
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX106,002,416 - 106,005,146 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113007   ⟹   ENSRNOP00000081416
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX98,482,602 - 98,485,746 (+)Ensembl
RefSeq Acc Id: NM_001419568   ⟹   NP_001406497
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X102,744,421 - 102,780,220 (+)NCBI
mRatBN7.2X98,451,199 - 98,486,998 (+)NCBI
RefSeq Acc Id: XM_063280266   ⟹   XP_063136336
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X102,765,762 - 102,780,215 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001406497 (Get FASTA)   NCBI Sequence Viewer  
  XP_063136336 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM06993 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000081416
  ENSRNOP00000081416.1
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000040212   ⟸   ENSRNOT00000045591
RefSeq Acc Id: ENSRNOP00000045013   ⟸   ENSRNOT00000052196
RefSeq Acc Id: ENSRNOP00000081416   ⟸   ENSRNOT00000113007
RefSeq Acc Id: NP_001406497   ⟸   NM_001419568
- UniProtKB: D4ABN6 (UniProtKB/TrEMBL),   D4AAM5 (UniProtKB/TrEMBL),   A6IVI7 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063136336   ⟸   XM_063280266
- Peptide Label: isoform X1
- UniProtKB: A6IVI7 (UniProtKB/TrEMBL),   D4AAM5 (UniProtKB/TrEMBL),   D4ABN6 (UniProtKB/TrEMBL)

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4AAM5-F1-model_v2 AlphaFold D4AAM5 1-461 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:1561307 AgrOrtholog
BioCyc Gene G2FUF-1656 BioCyc
Ensembl Genes ENSRNOG00000037698 Ensembl
  ENSRNOG00000047492 Ensembl
  ENSRNOG00000068726 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000113007 ENTREZGENE
  ENSRNOT00000113007.1 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
InterPro L_dom-like UniProtKB/TrEMBL
KEGG Report rno:503464 UniProtKB/TrEMBL
NCBI Gene 503464 ENTREZGENE
PANTHER PRAME-LIKE, X-LINKED 1 UniProtKB/TrEMBL
  SIMILAR TO PREFERENTIALLY EXPRESSED ANTIGEN IN MELANOMA-LIKE 3 UniProtKB/TrEMBL
PhenoGen Pramel PhenoGen
RatGTEx ENSRNOG00000037698 RatGTEx
  ENSRNOG00000047492 RatGTEx
  ENSRNOG00000068726 RatGTEx
Superfamily-SCOP RNI-like UniProtKB/TrEMBL
UniProt A6IVI7 ENTREZGENE, UniProtKB/TrEMBL
  D4AAM5 ENTREZGENE, UniProtKB/TrEMBL
  D4ABN6 ENTREZGENE
UniProt Secondary D4ABN6 UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Pramel  preferentially expressed antigen in melanoma-like  LOC100910698  leucine-rich repeat-containing protein PRAME-like  Data merged from RGD:6496824 737654 PROVISIONAL
2012-10-11 Pramel  preferentially expressed antigen in melanoma-like  RGD1561307  similar to preferentially expressed antigen in melanoma-like 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-05 LOC100910698  leucine-rich repeat-containing protein PRAME-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 RGD1561307  similar to preferentially expressed antigen in melanoma-like 3   RGD1561307_predicted  similar to preferentially expressed antigen in melanoma-like 3 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1561307_predicted  similar to preferentially expressed antigen in melanoma-like 3 (predicted)  LOC503464  similar to preferentially expressed antigen in melanoma-like 3  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC503464  similar to preferentially expressed antigen in melanoma-like 3      Symbol and Name status set to provisional 70820 PROVISIONAL