Pramef27 (PRAME family member 27) - Rat Genome Database

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Gene: Pramef27 (PRAME family member 27) Rattus norvegicus
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Symbol: Pramef27
Name: PRAME family member 27
RGD ID: 1588644
Description: Predicted to enable ubiquitin ligase-substrate adaptor activity. Predicted to be involved in proteasome-mediated ubiquitin-dependent protein catabolic process. Predicted to be located in acrosomal vesicle. Predicted to be part of Cul2-RING ubiquitin ligase complex. Predicted to be active in cytoplasm. Orthologous to several human genes including PRAMEF6 (PRAME family member 6); INTERACTS WITH bisphenol A; all-trans-retinoic acid (ortholog); testosterone (ortholog).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC103692518; LOC691051; PRAME family member 18-like; PRAME family member 19-like; Pramel1; preferentially expressed antigen in melanoma-like 1; similar to preferentially expressed antigen in melanoma-like 1
RGD Orthologs
Human
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85161,036,419 - 161,043,774 (+)NCBIGRCr8
mRatBN7.25155,752,765 - 155,759,663 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5155,756,015 - 155,759,663 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5158,440,300 - 158,443,948 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05160,213,616 - 160,217,264 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05160,169,565 - 160,173,213 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05162,158,000 - 162,165,475 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5162,127,810 - 162,164,576 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05165,852,576 - 165,859,999 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45162,296,538 - 162,300,186 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera5154,062,813 - 154,066,461 (+)NCBICelera
Cytogenetic Map5q36NCBI
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
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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

Genomics

Comparative Map Data
Pramef27
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr85161,036,419 - 161,043,774 (+)NCBIGRCr8
mRatBN7.25155,752,765 - 155,759,663 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl5155,756,015 - 155,759,663 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx5158,440,300 - 158,443,948 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.05160,213,616 - 160,217,264 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.05160,169,565 - 160,173,213 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.05162,158,000 - 162,165,475 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl5162,127,810 - 162,164,576 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.05165,852,576 - 165,859,999 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.45162,296,538 - 162,300,186 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera5154,062,813 - 154,066,461 (+)NCBICelera
Cytogenetic Map5q36NCBI
PRAMEF6
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38112,938,472 - 12,947,580 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl112,938,472 - 12,947,580 (-)EnsemblGRCh38hg38GRCh38
GRCh37112,998,302 - 13,007,406 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36112,920,889 - 12,929,993 (-)NCBINCBI36Build 36hg18NCBI36
Cytogenetic Map1p36.21NCBI
CHM1_1112,986,528 - 12,995,636 (-)NCBICHM1_1
T2T-CHM13v2.0112,482,394 - 12,489,336 (-)NCBIT2T-CHM13v2.0

Variants

.
Variants in Pramef27
27 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:112
Count of miRNA genes:96
Interacting mature miRNAs:100
Transcripts:ENSRNOT00000038858
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
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)52138965166875058Rat
1578766Tcas11Tongue tumor susceptibility QTL 114.12tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)546711509161317411Rat
61393Bp7Blood pressure QTL 74.50.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)560293434161481680Rat
1302790Scl20Serum cholesterol level QTL 206.40.0001blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)582394392166664054Rat
8694441Bw169Body weight QTL 16917.610.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)5111416838156416838Rat
8694198Abfw3Abdominal fat weight QTL 316.130.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)5111416838156416838Rat
8694389Bw160Body weight QTL 1606.170.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)5111416838156416838Rat
8552960Pigfal15Plasma insulin-like growth factor 1 level QTL 15blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5111416838156416838Rat
1641920Colcs1Colorectal carcinoma susceptibility QTL 12.990.0055intestine integrity trait (VT:0010554)benign colorectal tumor surface area measurement (CMO:0001799)5121846814166846814Rat
10053720Scort26Serum corticosterone level QTL 262.060.0147blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)5124965598166875058Rat
724525Bp147Blood pressure QTL 1474.30.0001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5126424772166875058Rat
1598819Bp292Blood pressure QTL 2924.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5127798274166875058Rat
1598861Cm64Cardiac mass QTL 642.9heart mass (VT:0007028)heart weight to body weight ratio (CMO:0000074)5127798274166875058Rat
8552908Pigfal4Plasma insulin-like growth factor 1 level QTL 46.6blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)5128506074166875058Rat
8694169Bw148Body weight QTL 14850.001body mass (VT:0001259)body weight gain (CMO:0000420)5128506074166875058Rat
634349Bp139Blood pressure QTL 1390.001arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5128924607166875058Rat
738018Anxrr4Anxiety related response QTL 45.1exploratory behavior trait (VT:0010471)percentage of entries into a discrete space in an experimental apparatus (CMO:0000961)5130130159166875058Rat
7794791Mcs33Mammary carcinoma susceptibility QTL 331.93mammary gland integrity trait (VT:0010552)mammary tumor incidence/prevalence measurement (CMO:0000946)5131345754166875058Rat
631505Bp103Blood pressure QTL 1033.2arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)5132717196165560427Rat
631562Apr2Acute phase response QTL 23.7blood murinoglobulin 1 amount (VT:0010597)plasma murinoglobulin 1 level (CMO:0001931)5135927956166875058Rat
61444Strs2Sensitivity to stroke QTL 24.7cerebrum integrity trait (VT:0010549)post-insult time to onset of cerebrovascular lesion (CMO:0002343)5135929696166875058Rat
1331721Bp210Blood pressure QTL 2103.413arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5143069996166846814Rat
2302369Scl60Serum cholesterol level QTL 603.13blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)5143608201161165651Rat
631263Cm24Cardiac mass QTL 243.5heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)5143799107158428037Rat
1300119Bp180Blood pressure QTL 1803.82arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)5144358090157869054Rat
2313096Bmd78Bone mineral density QTL 783.10.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)5144377876161317411Rat
1298090Bp155Blood pressure QTL 1553.8arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)5151006154161165494Rat
1354631Swd2Spike wave discharge measurement QTL 23.640.0002brain electrophysiology trait (VT:0010557)brain total spike-and-wave discharge duration (CMO:0001740)5151113452164465185Rat
631272Lanf1Left ventricular atrial natriuretic factor QTL 112heart left ventricle natriuretic peptide A amount (VT:0010596)heart left ventricle natriuretic peptide A level (CMO:0002165)5151113452166875058Rat
1549904Neuinf1Neuroinflammation QTL 130nervous system integrity trait (VT:0010566)blood T lymphocyte count (CMO:0000110)5154828214166875058Rat


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

endocrine system exocrine system hepatobiliary system integumental system musculoskeletal system nervous system reproductive system appendage
High
Medium 11
Low 15
Below cutoff 1 1 1 1 1 2 8 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000038858   ⟹   ENSRNOP00000033783
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl5155,756,015 - 155,759,663 (+)Ensembl
Rnor_6.0 Ensembl5162,127,810 - 162,164,576 (+)Ensembl
RefSeq Acc Id: NM_001109617   ⟹   NP_001103087
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85161,039,303 - 161,042,951 (+)NCBI
mRatBN7.25155,756,015 - 155,759,663 (+)NCBI
Rnor_6.05162,160,928 - 162,164,576 (+)NCBI
Rnor_5.05165,852,576 - 165,859,999 (+)NCBI
RGSC_v3.45162,296,538 - 162,300,186 (+)RGD
Celera5154,062,813 - 154,066,461 (+)RGD
Sequence:
RefSeq Acc Id: XM_006239342   ⟹   XP_006239404
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85161,036,419 - 161,043,774 (+)NCBI
mRatBN7.25155,752,767 - 155,759,663 (+)NCBI
Rnor_6.05162,158,000 - 162,165,475 (+)NCBI
Rnor_5.05165,852,576 - 165,859,999 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006239343   ⟹   XP_006239405
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr85161,036,431 - 161,043,774 (+)NCBI
mRatBN7.25155,752,765 - 155,759,663 (+)NCBI
Rnor_6.05162,158,000 - 162,165,475 (+)NCBI
Rnor_5.05165,852,576 - 165,859,999 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001103087 (Get FASTA)   NCBI Sequence Viewer  
  XP_006239404 (Get FASTA)   NCBI Sequence Viewer  
  XP_006239405 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL81048 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000033783
  ENSRNOP00000033783.2
Reference Protein Sequences
RefSeq Acc Id: NP_001103087   ⟸   NM_001109617
- UniProtKB: D4A203 (UniProtKB/TrEMBL),   A6ITZ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006239405   ⟸   XM_006239343
- Peptide Label: isoform X1
- UniProtKB: D4A203 (UniProtKB/TrEMBL),   A6ITZ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006239404   ⟸   XM_006239342
- Peptide Label: isoform X1
- UniProtKB: D4A203 (UniProtKB/TrEMBL),   A6ITZ7 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000033783   ⟸   ENSRNOT00000038858

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A203-F1-model_v2 AlphaFold D4A203 1-458 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:1588644 AgrOrtholog
BioCyc Gene G2FUF-39293 BioCyc
Ensembl Genes ENSRNOG00000027328 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000038858 ENTREZGENE
  ENSRNOT00000038858.5 UniProtKB/TrEMBL
Gene3D-CATH 3.80.10.10 UniProtKB/TrEMBL
InterPro L_dom-like UniProtKB/TrEMBL
  PRAME_family UniProtKB/TrEMBL
KEGG Report rno:691051 UniProtKB/TrEMBL
NCBI Gene 691051 ENTREZGENE
PANTHER PREFERENTIALLY EXPRESSED ANTIGEN IN MELANOMA-LIKE PROTEIN 1 UniProtKB/TrEMBL
  SIMILAR TO PREFERENTIALLY EXPRESSED ANTIGEN IN MELANOMA-LIKE 3 UniProtKB/TrEMBL
PhenoGen Pramef27 PhenoGen
PIRSF PRAME UniProtKB/TrEMBL
RatGTEx ENSRNOG00000027328 RatGTEx
Superfamily-SCOP RNI-like UniProtKB/TrEMBL
UniProt A6ITZ7 ENTREZGENE, UniProtKB/TrEMBL
  D4A203 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2021-03-09 Pramef27  PRAME family member 27  LOC103692518  PRAME family member 18-like  Data merged from RGD:9319280 737654 PROVISIONAL
2015-12-21 Pramef27  PRAME family member 27  Pramel1  preferentially expressed antigen in melanoma-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-08-25 LOC103692518  PRAME family member 18-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-03-06 Pramel1  preferentially expressed antigen in melanoma-like 1  LOC691051  similar to preferentially expressed antigen in melanoma-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC691051  similar to preferentially expressed antigen in melanoma-like 1  LOC686347  similar to preferentially expressed antigen in melanoma-like 1  Data merged from RGD:1583156 1643240 APPROVED
2006-11-19 LOC691051  similar to preferentially expressed antigen in melanoma-like 1      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC686347  similar to preferentially expressed antigen in melanoma-like 1      Symbol and Name status set to provisional 70820 PROVISIONAL