Alg13l1 (ALG13, UDP-N-acetylglucosaminyltransferase subunit like 1) - Rat Genome Database

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Gene: Alg13l1 (ALG13, UDP-N-acetylglucosaminyltransferase subunit like 1) Rattus norvegicus
Analyze
No known orthologs.
Symbol: Alg13l1 (Ensembl: Alg13)
Name: ALG13, UDP-N-acetylglucosaminyltransferase subunit like 1 (Ensembl:ALG13, UDP-N-acetylglucosaminyltransferase subunit)
RGD ID: 1359416
Description: Predicted to enable N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity. Predicted to be involved in dolichol-linked oligosaccharide biosynthetic process. Predicted to be located in endoplasmic reticulum. Human ortholog(s) of this gene implicated in developmental and epileptic encephalopathy 36. Orthologous to human ALG13 (ALG13 UDP-N-acetylglucosaminyltransferase subunit); PARTICIPATES IN N-linked glycan biosynthetic pathway; .
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: Alg13; ALG13, UDP-N-acetylglucosaminyltransferase subunit; asparagine-linked glycosylation 13; asparagine-linked glycosylation 13 homolog; asparagine-linked glycosylation 13 homolog (S. cerevisiae); glycosyltransferase 28 domain-containing protein 1; LOC300284; similar to RIKEN cDNA 4833435D08; UDP-N-acetylglucosamine transferase subunit ALG13 homolog
RGD Orthologs
Alliance Genes
More Info homologs ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X112,681,707 - 112,702,932 (+)NCBIGRCr8
mRatBN7.2X107,885,039 - 107,906,264 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX107,885,064 - 107,893,002 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX110,028,727 - 110,036,623 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X113,528,441 - 113,536,343 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X111,080,680 - 111,088,578 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X115,561,329 - 115,589,792 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX115,561,332 - 115,619,505 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X114,015,086 - 114,036,262 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X34,184,163 - 34,192,061 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X34,237,632 - 34,245,530 (-)NCBI
CeleraX107,272,709 - 107,280,607 (+)NCBICelera
Cytogenetic MapXq34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
2. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
3. GOA pipeline RGD automated data pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:15489334   PMID:21873635   PMID:22681889  


Genomics

Variants

.
Variants in Alg13l1
28 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:26
Count of miRNA genes:23
Interacting mature miRNAs:25
Transcripts:ENSRNOT00000007968
Prediction methods:Miranda, Pita, Pita,Targetscan, Rnahybrid, Targetscan
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
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
738025Stresp3Stress response QTL 34.610.0066stress-related behavior trait (VT:0010451)defensive burying - approachX100567703150256146Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX41304447112935181Rat
1598809Memor15Memory QTL 154.4exploratory 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)X103312877148312877Rat
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
1598856Memor1Memory QTL 11.9exploratory behavior trait (VT:0010471)total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)X103312877148312877Rat
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

Markers in Region
RH132347  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0X119,392,576 - 119,392,766NCBIRnor5.0
Rnor_5.0X114,022,712 - 114,022,902NCBIRnor5.0
Rnor_5.0X119,397,882 - 119,398,072NCBIRnor5.0
RGSC_v3.4X29,575,614 - 29,575,803UniSTSRGSC3.4
RGSC_v3.4X34,184,274 - 34,184,463UniSTSRGSC3.4
CeleraX111,241,164 - 111,241,353UniSTS
CeleraX107,280,307 - 107,280,496UniSTS
Cytogenetic MapXq14UniSTS
RH142021  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X107,883,705 - 107,885,105 (+)MAPPERmRatBN7.2
Rnor_6.0X115,559,960 - 115,561,359NCBIRnor6.0
Rnor_5.0X114,013,717 - 114,015,116UniSTSRnor5.0
RGSC_v3.4X34,192,060 - 34,193,459UniSTSRGSC3.4
CeleraX107,271,311 - 107,272,710UniSTS
RH 3.4 Map71123.91UniSTS
Cytogenetic MapXq14UniSTS


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

alimentary part of gastrointestinal system 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 4 10 4 6 4 63 14 34
Low 3 39 47 37 13 37 8 11 11 21 7 11 8
Below cutoff

Sequence


RefSeq Acc Id: ENSRNOT00000007968   ⟹   ENSRNOP00000007969
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX115,561,358 - 115,568,217 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000075912   ⟹   ENSRNOP00000068280
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX115,561,347 - 115,619,339 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076521   ⟹   ENSRNOP00000068197
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX115,561,347 - 115,619,339 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000076680   ⟹   ENSRNOP00000068463
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 EnsemblX107,885,064 - 107,893,002 (+)Ensembl
Rnor_6.0 EnsemblX115,561,332 - 115,569,259 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000077034   ⟹   ENSRNOP00000067947
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX115,561,332 - 115,589,757 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000087859   ⟹   ENSRNOP00000073949
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.0 EnsemblX115,563,038 - 115,619,505 (+)Ensembl
RefSeq Acc Id: NM_001013951   ⟹   NP_001013973
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X112,681,771 - 112,689,669 (+)NCBI
mRatBN7.2X107,885,104 - 107,893,002 (+)NCBI
Rnor_6.0X115,561,358 - 115,569,256 (+)NCBI
Rnor_5.0X114,015,086 - 114,036,262 (+)NCBI
RGSC_v3.4X34,184,163 - 34,192,061 (-)RGD
CeleraX107,272,709 - 107,280,607 (+)RGD
Sequence:
RefSeq Acc Id: XM_017601953   ⟹   XP_017457442
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X112,681,707 - 112,702,932 (+)NCBI
mRatBN7.2X107,885,039 - 107,906,264 (+)NCBI
Rnor_6.0X115,561,329 - 115,582,576 (+)NCBI
Sequence:
RefSeq Acc Id: XM_063279883   ⟹   XP_063135953
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X112,681,735 - 112,689,669 (+)NCBI
RefSeq Acc Id: NP_001013973   ⟸   NM_001013951
- UniProtKB: Q5I0K7 (UniProtKB/Swiss-Prot),   A6KG91 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_017457442   ⟸   XM_017601953
- Peptide Label: isoform X1
- UniProtKB: A0A096MJN3 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000067947   ⟸   ENSRNOT00000077034
RefSeq Acc Id: ENSRNOP00000073949   ⟸   ENSRNOT00000087859
RefSeq Acc Id: ENSRNOP00000068280   ⟸   ENSRNOT00000075912
RefSeq Acc Id: ENSRNOP00000007969   ⟸   ENSRNOT00000007968
RefSeq Acc Id: ENSRNOP00000068463   ⟸   ENSRNOT00000076680
RefSeq Acc Id: ENSRNOP00000068197   ⟸   ENSRNOT00000076521
RefSeq Acc Id: XP_063135953   ⟸   XM_063279883
- Peptide Label: isoform X2
Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q5I0K7-F1-model_v2 AlphaFold Q5I0K7 1-165 view protein structure

Transcriptome

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

Promoters
RGD ID:13701970
Promoter ID:EPDNEW_R12493
Type:multiple initiation site
Name:LOC108349244_1
Description:putative bifunctional UDP-N-acetylglucosamine transferase anddeubiquitinase ALG13
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_6.0X115,561,332 - 115,561,392EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1359416 AgrOrtholog
BioCyc Gene G2FUF-1488 BioCyc
Ensembl Genes ENSRNOG00000005753 Ensembl, UniProtKB/TrEMBL
  ENSRNOG00000065758 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
  ENSRNOG00055025531 UniProtKB/Swiss-Prot
  ENSRNOG00060018681 UniProtKB/Swiss-Prot
  ENSRNOG00065026757 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000075912.3 UniProtKB/TrEMBL
  ENSRNOT00000076680 ENTREZGENE
  ENSRNOT00000076680.3 UniProtKB/Swiss-Prot
  ENSRNOT00055044062 UniProtKB/Swiss-Prot
  ENSRNOT00060032167 UniProtKB/Swiss-Prot
  ENSRNOT00065046144 UniProtKB/Swiss-Prot
Gene3D-CATH Glycogen Phosphorylase B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:7324702 IMAGE-MGC_LOAD
InterPro Alg13-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Glyco_trans_28_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Tudor UniProtKB/TrEMBL
KEGG Report rno:300284 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:109002 IMAGE-MGC_LOAD
NCBI Gene 300284 ENTREZGENE
PANTHER GLYCOSYL TRANSFERASE-RELATED UniProtKB/TrEMBL
  N-ACETYLGLUCOSAMINYLDIPHOSPHODOLICHOL N-ACETYLGLUCOSAMINYLTRANSFERASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12867 UniProtKB/Swiss-Prot
Pfam Glyco_tran_28_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Alg13l1 PhenoGen
PROSITE TUDOR UniProtKB/TrEMBL
RatGTEx ENSRNOG00000005753 RatGTEx
  ENSRNOG00000065758 RatGTEx
  ENSRNOG00055025531 RatGTEx
  ENSRNOG00060018681 RatGTEx
  ENSRNOG00065026757 RatGTEx
Superfamily-SCOP Tudor/PWWP/MBT UniProtKB/TrEMBL
  UDP-Glycosyltransferase/glycogen phosphorylase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A096MJN3 ENTREZGENE
  A0A096MJV8_RAT UniProtKB/TrEMBL
  A6KG91 ENTREZGENE, UniProtKB/TrEMBL
  ALG13_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-08-01 Alg13l1  ALG13, UDP-N-acetylglucosaminyltransferase subunit like 1  Alg13  ALG13, UDP-N-acetylglucosaminyltransferase subunit  Name and Symbol changed 629549 APPROVED
2014-09-09 Alg13  ALG13, UDP-N-acetylglucosaminyltransferase subunit  Alg13  asparagine-linked glycosylation 13  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2012-07-13 Alg13  asparagine-linked glycosylation 13  Alg13  asparagine-linked glycosylation 13 homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-04 Alg13  asparagine-linked glycosylation 13 homolog (S. cerevisiae)  LOC300284  similar to RIKEN cDNA 4833435D08  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-07-29 LOC300284  similar to RIKEN cDNA 4833435D08      Symbol and Name status set to provisional 70820 PROVISIONAL