Snu13-ps5 (small nuclear ribonucleoprotein 13, pseudogene 5) - Rat Genome Database

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Gene: Snu13-ps5 (small nuclear ribonucleoprotein 13, pseudogene 5) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Snu13-ps5 (Ensembl: LOC100359574)
Name: small nuclear ribonucleoprotein 13, pseudogene 5 (Ensembl:NHP2 non-histone chromosome protein 2-like 1-like)
RGD ID: 2323620
Description: Orthologous to human SNU13 (small nuclear ribonucleoprotein 13).
Type: pseudo (Ensembl: protein-coding)
RefSeq Status: INFERRED
Previously known as: LOC100359574; NHP2 non-histone chromosome protein 2-like 1-like; NHP2-like protein 1
RGD Orthologs
Alliance Genes
More Info homologs ...
Related Functional Gene: Snu13  
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81269,702,073 - 269,702,945 (+)NCBIGRCr8
mRatBN7.21259,716,056 - 259,716,928 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1259,715,711 - 259,716,758 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.01281,863,115 - 281,864,546 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl7123,282,754 - 123,287,721 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 Ensembl1281,863,918 - 281,864,304 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01289,205,175 - 289,205,807 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41267,172,157 - 267,180,159 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1255,358,819 - 255,360,250 (+)NCBICelera
Cytogenetic Map1q55NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


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 Snu13-ps5
2 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1549837Hcar15Hepatocarcinoma resistance QTL 150.05liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)1153136852260522016Rat
1578763Kidm29Kidney mass QTL 293.30.0001kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1179567751260522016Rat
1358890Bp259Blood pressure QTL 2593.06arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)1210702053260522016Rat
61327Eae7Experimental allergic encephalomyelitis QTL 75.6body mass (VT:0001259)change in body weight (CMO:0002045)1216255568260522016Rat
2302040Pia35Pristane induced arthritis QTL 353.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1216255568260522016Rat
10053715Scort24Serum corticosterone level QTL 242.130.0088blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)1221414816260522016Rat
724552Glom2Glomerulus QTL 23.30.0001kidney glomerulus morphology trait (VT:0005325)count of superficial glomeruli directly contacting the kidney surface (CMO:0001001)1222363780260522016Rat
1600392Bw123Body weight QTL 1230.001body mass (VT:0001259)body weight (CMO:0000012)1223201027260522016Rat
734767Niddm57Non-insulin dependent diabetes mellitus QTL 57body mass (VT:0001259)body weight (CMO:0000012)1224054293260122809Rat
631843Bw116Body weight QTL 1164.10.016abdominal adipose amount (VT:1000220)abdominal fat pad weight (CMO:0000088)1224054293260122809Rat
734769Niddm58Non-insulin dependent diabetes mellitus QTL 58body mass (VT:0001259)body weight (CMO:0000012)1224569538260122809Rat
631215Stl8Serum triglyceride level QTL 89.270.0001blood triglyceride amount (VT:0002644)serum triglyceride level (CMO:0000360)1225126575260522016Rat
631536Lnnr2Liver neoplastic nodule remodeling QTL 22.90.0005liver integrity trait (VT:0010547)liver remodeling tumorous lesion number to liver total tumorous lesion number ratio (CMO:0001705)1233948574260522016Rat
631690Scl5Serum cholesterol level QTL 52.1blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)1236125214260522016Rat
631836Stl31Serum triglyceride level QTL 314.640.00000487blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)1237147813260522016Rat
737975Bw122Body weight QTL 1229.110.005body mass (VT:0001259)body weight (CMO:0000012)1258843780260122809Rat
71112Bw115Body weight QTL 11560.0001body mass (VT:0001259)body weight (CMO:0000012)1259647732260522016Rat

Markers in Region
ha3103  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21259,714,867 - 259,716,458 (+)MAPPERmRatBN7.2
Rnor_6.01281,862,640 - 281,864,230NCBIRnor6.0
Rnor_5.01289,203,991 - 289,205,581UniSTSRnor5.0
RGSC_v3.41267,178,298 - 267,179,888UniSTSRGSC3.4
Celera1255,358,344 - 255,359,934UniSTS
Cytogenetic Map1q55UniSTS


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000030108   ⟹   ENSRNOP00000051559
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1259,715,711 - 259,716,758 (+)Ensembl
Rnor_6.0 Ensembl1281,863,918 - 281,864,304 (+)Ensembl
RefSeq Acc Id: XM_008760591   ⟹   XP_008758813
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21259,716,062 - 259,716,923 (+)NCBI
Rnor_6.01281,863,115 - 281,864,546 (+)NCBI
Sequence:
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P55770-F1-model_v2 AlphaFold P55770 1-128 view protein structure

Transcriptome

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

Promoters
RGD ID:13691019
Promoter ID:EPDNEW_R1541
Type:initiation region
Name:LOC100359574_1
Description:NHP2 non-histone chromosome protein 2-like 1-like
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_6.01281,863,864 - 281,863,924EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:2323620 AgrOrtholog
BioCyc Gene G2FUF-55229 BioCyc
Ensembl Genes ENSRNOG00000006762 Ensembl
  ENSRNOG00000025154 Ensembl
NCBI Gene 100359574 ENTREZGENE
PhenoGen Snu13-ps5 PhenoGen
RatGTEx ENSRNOG00000006762 RatGTEx
  ENSRNOG00000025154 RatGTEx


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Snu13-ps5  small nuclear ribonucleoprotein 13, pseudogene 5  LOC100359574  NHP2 non-histone chromosome protein 2-like 1-like  Symbol and Name Changed 1299863 APPROVED
2010-05-06 LOC100359574  NHP2 non-histone chromosome protein 2-like 1-like      Symbol and Name status set to provisional 70820 PROVISIONAL