Kmt5al2 (lysine methyltransferase 5A like 2) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Kmt5al2 (lysine methyltransferase 5A like 2) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Kmt5al2 (Ensembl: RGD1561318)
Name: lysine methyltransferase 5A like 2 (Ensembl:similar to SET domain-containing protein)
RGD ID: 1561318
Description: Predicted to enable histone H4K20 monomethyltransferase activity. Predicted to be involved in chromatin remodeling and methylation. Orthologous to human KMT5A (lysine methyltransferase 5A); PARTICIPATES IN lysine degradation pathway; INTERACTS WITH 6-propyl-2-thiouracil; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: LOC317568; N-lysine methyltransferase KMT5A-like; RGD1561318; similar to SET domain-containing protein
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X96,451,051 - 96,454,623 (+)NCBIGRCr8
mRatBN7.2X92,178,344 - 92,180,517 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX92,178,016 - 92,179,731 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0X99,389,138 - 99,395,608 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX99,389,351 - 99,390,277 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X99,231,996 - 99,240,558 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
CeleraX93,305,684 - 93,311,984 (+)NCBICelera
Cytogenetic MapXq31NCBI
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

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
lysine degradation pathway  (IEA)

External Pathway Database Links

KEGG Pathway Lysine degradation

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. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. GOA pipeline RGD automated data pipeline
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Variants

.
Variants in Kmt5al2
8 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:98
Count of miRNA genes:93
Interacting mature miRNAs:94
Transcripts:ENSRNOT00000075783
Prediction methods:Microtar, 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

Markers in Region
RH124262  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X92,181,001 - 92,181,089 (+)MAPPERmRatBN7.2
Rnor_6.0X99,391,548 - 99,391,635NCBIRnor6.0
Rnor_5.0X99,234,607 - 99,234,694UniSTSRnor5.0
RGSC_v3.4X116,230,356 - 116,230,443UniSTSRGSC3.4
CeleraX93,308,092 - 93,308,179UniSTS


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

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 8
Below cutoff 3 11 3 6 3 5 5 7 8 7 7 5

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000075783   ⟹   ENSRNOP00000069729
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX92,178,016 - 92,179,731 (+)Ensembl
Rnor_6.0 EnsemblX99,389,351 - 99,390,277 (+)Ensembl
RefSeq Acc Id: XM_017602351   ⟹   XP_017457840
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X96,451,051 - 96,454,623 (+)NCBI
mRatBN7.2X92,178,344 - 92,180,517 (+)NCBI
Rnor_6.0X99,389,138 - 99,390,358 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_017457840 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000069729.2
Reference Protein Sequences
RefSeq Acc Id: XP_017457840   ⟸   XM_017602351
- UniProtKB: A0A0G2JW37 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000069729   ⟸   ENSRNOT00000075783
Protein Domains
SET

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-A0A0G2JW37-F1-model_v2 AlphaFold A0A0G2JW37 1-308 view protein structure

Transcriptome

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

Promoters
RGD ID:13701932
Promoter ID:EPDNEW_R12449
Type:single initiation site
Name:RGD1561318_1
Description:similar to SET domain-containing protein
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_6.0X99,389,253 - 99,389,313EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1561318 AgrOrtholog
BioCyc Gene G2FUF-1726 BioCyc
Ensembl Genes ENSRNOG00000050970 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000075783.3 UniProtKB/TrEMBL
Gene3D-CATH 2.170.270.10 UniProtKB/TrEMBL
InterPro Hist_H4-K20_MeTrfase UniProtKB/TrEMBL
  KMT5A-like_SET UniProtKB/TrEMBL
  SET_dom UniProtKB/TrEMBL
  SET_dom_sf UniProtKB/TrEMBL
NCBI Gene Kmt5al2 ENTREZGENE
PANTHER N-LYSINE METHYLTRANSFERASE KMT5A UniProtKB/TrEMBL
  N-LYSINE METHYLTRANSFERASE KMT5A UniProtKB/TrEMBL
Pfam SET UniProtKB/TrEMBL
PhenoGen Kmt5al2 PhenoGen
PIRSF Histone_H4-K20_mtfrase UniProtKB/TrEMBL
PROSITE SAM_MT43_PR_SET UniProtKB/TrEMBL
  SET UniProtKB/TrEMBL
RatGTEx ENSRNOG00000050970 RatGTEx
SMART SET UniProtKB/TrEMBL
Superfamily-SCOP SSF82199 UniProtKB/TrEMBL
UniProt A0A0G2JW37 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-09-19 Kmt5al2  lysine methyltransferase 5A like 2  RGD1561318  similar to SET domain-containing protein  Symbol and Name Changed 1299863 APPROVED
2012-07-02 RGD1561318  similar to SET domain-containing protein  LOC100361623  hypothetical LOC100361623  Data merged from RGD:2319749 1643240 APPROVED
2010-05-05 LOC100361623  hypothetical LOC100361623      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 RGD1561318  similar to SET domain-containing protein   RGD1561318_predicted  similar to SET domain-containing protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1561318_predicted  similar to SET domain-containing protein (predicted)  LOC317568  similar to SET domain-containing protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC317568  similar to SET domain-containing protein      Symbol and Name status set to provisional 70820 PROVISIONAL