Rpl23a-ps20 (ribosomal protein L23a, pseudogene 20) - Rat Genome Database

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Gene: Rpl23a-ps20 (ribosomal protein L23a, pseudogene 20) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Rpl23a-ps20 (Ensembl: LOC689899)
Name: ribosomal protein L23a, pseudogene 20 (Ensembl:similar to 60S ribosomal protein L23a)
RGD ID: 1587481
Description:
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: 60S ribosomal protein L23a-like; LOC689899; similar to 60S ribosomal protein L23a
RGD Orthologs
Alliance Orthologs
More Info homologs ...
Related Functional Gene: Rpl23a  
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81421,733,873 - 21,734,412 (-)NCBIGRCr8GRCr8GRCr8
mRatBN7.21421,379,049 - 21,379,588 (-)NCBImRatBN7.2mRatBN7.2
Rnor_6.01424,129,598 - 24,130,134 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1424,129,592 - 24,130,122 (+)Ensemblrn6Rnor6.0
Rnor_5.01423,966,461 - 23,966,994 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41423,002,097 - 23,002,613 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1420,869,907 - 20,870,443 (-)NCBICelera
Cytogenetic Map14p21NCBI
JBrowse:




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

Variants

.
Variants in Rpl23a-ps20
2 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:8
Count of miRNA genes:8
Interacting mature miRNAs:8
Transcripts:ENSRNOT00000040647
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
631528Scl11Serum cholesterol level QTL 114.9blood cholesterol amount (VT:0000180)blood total cholesterol level (CMO:0000051)141787564536079022Rat
7411573Bw139Body weight QTL 1394.70.001body mass (VT:0001259)body weight gain (CMO:0000420)14140068101Rat
9589814Gluco67Glucose level QTL 674.540.001blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)14140068101Rat
731183Pia20Pristane induced arthritis QTL 203.55joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)14939329839411170Rat
631212Bw5Body weight QTL55.43retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)141133490630674469Rat
2302277Gluco38Glucose level QTL 385.8blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)141133471628389666Rat
1331740Bw26Body weight QTL 263.028body mass (VT:0001259)body weight (CMO:0000012)14395787831121464Rat
1358296Ael3Aortic elastin QTL 33.70.00051aorta elastin amount (VT:0003905)aortic elastin14862139853621398Rat
61420Pia6Pristane induced arthritis QTL 64.9joint integrity trait (VT:0010548)arthritic paw count (CMO:0001460)141891545442433608Rat
70195Mcs8Mammary carcinoma susceptibility QTL 84.28mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)14395787824886169Rat
631839Niddm37Non-insulin dependent diabetes mellitus QTL 373.37blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)1411334716100078267Rat
2313397Coatc1Coat color QTL1coat/hair pigmentation trait (VT:0010463)coat/hair color measurement (CMO:0001808)141889519263895192Rat
631262Tcas4Tongue tumor susceptibility QTL 47.29tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)141790672654251504Rat
634352Apr6Acute phase response QTL 63.7blood interleukin-6 amount (VT:0008595)plasma interleukin-6 level (CMO:0001927)14141415516Rat
70204Niddm20Non-insulin dependent diabetes mellitus QTL 205.10.000008blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)14131893212Rat
2302045Pia39Pristane induced arthritis QTL 394.90.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G2a level (CMO:0002116)14862139853621398Rat
1300140Srn3Serum renin concentration QTL 33.19blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)141513759431238250Rat

Markers in Region
D14Wox3  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21421,379,546 - 21,379,735 (-)MAPPERmRatBN7.2
Rnor_6.01424,129,442 - 24,129,630NCBIRnor6.0
Rnor_5.01423,966,305 - 23,966,493UniSTSRnor5.0
RGSC_v3.41423,002,588 - 23,002,775RGDRGSC3.4
RGSC_v3.41423,002,587 - 23,002,775UniSTSRGSC3.4
Celera1420,870,411 - 20,870,601UniSTS
RGSC_v3.11423,002,588 - 23,002,775RGD
RH 3.4 Map14245.5UniSTS
RH 3.4 Map14245.5RGD
Cytogenetic Map14p21UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 4 28 65 54 57 35 17 35 6 131 59 53 26 42 22

Sequence


Ensembl Acc Id: ENSRNOT00000040647   ⟹   ENSRNOP00000049652
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 Ensembl1424,129,592 - 24,130,122 (+)Ensembl
RefSeq Acc Id: XM_039092689   ⟹   XP_038948617
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21421,379,046 - 21,379,585 (-)NCBI
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZTH8-F1-model_v2 AlphaFold D3ZTH8 1-156 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:1587481 AgrOrtholog
BioCyc Gene G2FUF-16080 BioCyc
Ensembl Genes ENSRNOG00000030614 Ensembl
NCBI Gene 689899 ENTREZGENE
PhenoGen Rpl23a-ps20 PhenoGen
RatGTEx ENSRNOG00000030614 RatGTEx


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2022-07-15 Rpl23a-ps20  ribosomal protein L23a, pseudogene 20  LOC689899  similar to 60S ribosomal protein L23a  Name and Symbol and Type changed (type changed from [protein-coding] to [pseudo]) 629549 APPROVED
2008-01-09 LOC689899  similar to 60S ribosomal protein L23a  LOC686564  similar to 60S ribosomal protein L23a  Data merged from RGD:1596335 1643240 APPROVED
2006-11-20 LOC686564  similar to 60S ribosomal protein L23a      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC689899  similar to 60S ribosomal protein L23a      Symbol and Name status set to provisional 70820 PROVISIONAL