Alg1 (ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase) - Rat Genome Database

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Gene: Alg1 (ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase) Rattus norvegicus
Analyze
Symbol: Alg1
Name: ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase
RGD ID: 1310700
Description: Predicted to enable chitobiosyldiphosphodolichol beta-mannosyltransferase activity. Predicted to be involved in dolichol-linked oligosaccharide biosynthetic process. Predicted to act upstream of with a positive effect on protein N-linked glycosylation. Predicted to be located in endoplasmic reticulum and membrane. Human ortholog(s) of this gene implicated in congenital disorder of glycosylation Ik. Orthologous to several human genes including ALG1 (ALG1 chitobiosyldiphosphodolichol beta-mannosyltransferase); PARTICIPATES IN N-linked glycan biosynthetic pathway; INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: asparagine-linked glycosylation 1 homolog (S. cerevisiae, beta-1,4-mannosyltransferase); asparagine-linked glycosylation 1 homolog (yeast, beta-1,4-mannosyltransferase); asparagine-linked glycosylation 1, beta-1,4-mannosyltransferase homolog; asparagine-linked glycosylation 1, beta-1,4-mannosyltransferase homolog (S. cerevisiae); beta-1,4-mannosyltransferase; chitobiosyldiphosphodolichol beta-mannosyltransferase; LOC360475
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81010,853,014 - 10,863,250 (-)NCBIGRCr8
mRatBN7.21010,346,538 - 10,356,768 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1010,346,536 - 10,356,750 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1015,053,182 - 15,063,415 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01014,541,989 - 14,552,225 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01010,210,983 - 10,221,211 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01010,539,930 - 10,550,178 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1010,539,930 - 10,550,138 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0109,309,794 - 9,320,036 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41010,460,098 - 10,470,815 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11010,460,451 - 10,470,817 (-)NCBI
Celera109,312,603 - 9,322,805 (-)NCBICelera
Cytogenetic Map10q12NCBI
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. 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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
3. KEGG Annotation Import Pipeline Pipeline to import KEGG annotations from KEGG into RGD
4. GOA pipeline RGD automated data pipeline
5. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:19946888   PMID:26931382  


Genomics

Comparative Map Data
Alg1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81010,853,014 - 10,863,250 (-)NCBIGRCr8
mRatBN7.21010,346,538 - 10,356,768 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1010,346,536 - 10,356,750 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1015,053,182 - 15,063,415 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01014,541,989 - 14,552,225 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01010,210,983 - 10,221,211 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01010,539,930 - 10,550,178 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1010,539,930 - 10,550,138 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0109,309,794 - 9,320,036 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41010,460,098 - 10,470,815 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11010,460,451 - 10,470,817 (-)NCBI
Celera109,312,603 - 9,322,805 (-)NCBICelera
Cytogenetic Map10q12NCBI
ALG1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38165,071,843 - 5,087,379 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl165,033,702 - 5,087,379 (+)EnsemblGRCh38hg38GRCh38
GRCh37165,121,844 - 5,137,380 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36165,061,821 - 5,075,589 (+)NCBINCBI36Build 36hg18NCBI36
Build 34165,061,820 - 5,075,588NCBI
Celera165,331,197 - 5,346,774 (+)NCBICelera
Cytogenetic Map16p13.3NCBI
HuRef165,087,870 - 5,103,521 (+)NCBIHuRef
CHM1_1165,122,998 - 5,138,572 (+)NCBICHM1_1
T2T-CHM13v2.0165,101,343 - 5,116,882 (+)NCBIT2T-CHM13v2.0
Alg1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39165,051,410 - 5,062,773 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl165,051,485 - 5,062,776 (+)EnsemblGRCm39 Ensembl
GRCm38165,233,621 - 5,244,909 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl165,233,621 - 5,244,912 (+)EnsemblGRCm38mm10GRCm38
MGSCv37165,233,714 - 5,245,000 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36165,148,957 - 5,160,217 (+)NCBIMGSCv36mm8
Celera165,866,634 - 5,877,920 (+)NCBICelera
Cytogenetic Map16A1NCBI
cM Map162.51NCBI
Alg1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0NW_00495544212,476,055 - 12,487,613 (-)NCBIChiLan1.0ChiLan1.0
ALG1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2185,599,767 - 5,613,556 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1169,390,094 - 9,403,661 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0163,995,711 - 4,009,476 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1165,158,944 - 5,173,880 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl165,158,979 - 5,173,189 (+)Ensemblpanpan1.1panPan2
ALG1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1636,369,246 - 36,380,963 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha637,760,207 - 37,772,690 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0636,570,485 - 36,583,025 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.1636,369,136 - 36,381,672 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0636,260,375 - 36,272,839 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0636,660,572 - 36,673,095 (-)NCBIUU_Cfam_GSD_1.0
Alg1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024409344107,102,694 - 107,112,434 (+)NCBIHiC_Itri_2
SpeTri2.0NW_0049365304,948,130 - 4,957,306 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ALG1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1337,323,725 - 37,340,401 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2338,329,047 - 38,345,724 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ALG1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.154,739,019 - 4,752,292 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl54,739,048 - 4,753,119 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606825,901,661 - 25,915,115 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Alg1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248242,863,983 - 2,874,953 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248242,846,573 - 2,875,459 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Alg1
35 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:476
Count of miRNA genes:245
Interacting mature miRNAs:296
Transcripts:ENSRNOT00000067932
Prediction methods:Microtar, Miranda, 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
634329Pia15Pristane induced arthritis QTL 153.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10124158324Rat
2293680Bss40Bone structure and strength QTL 405.660.0001femur strength trait (VT:0010010)femur total energy absorbed before break (CMO:0001677)10135225947Rat
634327Hc4Hypercalciuria QTL 42.4urine calcium amount (VT:0002985)urine calcium excretion rate (CMO:0000763)10138328221Rat
7411611Foco17Food consumption QTL 1718.70.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)10142315980Rat
70223Bp57Blood pressure QTL 575arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)10180676123Rat
10401803Kidm50Kidney mass QTL 50kidney mass (VT:0002707)both kidneys wet weight (CMO:0000085)1041834445418344Rat
631554Bp133Blood pressure QTL 1330.005arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)1074336463851208Rat
1576304Schws7Schwannoma susceptibility QTL 70.0115nervous system integrity trait (VT:0010566)percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)10476552719816042Rat
631828Alc5Alcohol consumption QTL 52.4consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402717245662Rat
737820Alc9Alcohol consumption QTL 92.2consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)10514402719233348Rat
2313064Bmd71Bone mineral density QTL 710.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)10538701450387014Rat
2313066Bss63Bone structure and strength QTL 631.40.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)10538701450387014Rat
2313081Bss64Bone structure and strength QTL 641.30.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)10538701450387014Rat
2313095Bss62Bone structure and strength QTL 621.50.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2313104Bss61Bone structure and strength QTL 610.90.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)10538701450387014Rat
2298544Neuinf9Neuroinflammation QTL 94.6nervous system integrity trait (VT:0010566)spinal cord complement component 1, q subcomponent, B chain mRNA level (CMO:0002126)10580199062146030Rat
631660Hcar1Hepatocarcinoma resistance QTL 13.40.0001liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)10615418215990232Rat
8662860Vetf10Vascular elastic tissue fragility QTL 10artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)10615418273453136Rat
61427Cia16Collagen induced arthritis QTL 163.2joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)10635789696121100Rat
1578761Stresp21Stress response QTL 213.3thymus mass (VT:0004954)thymus wet weight (CMO:0000855)10637574651375746Rat
2303118Mamtr7Mammary tumor resistance QTL 70.003mammary gland integrity trait (VT:0010552)mammary tumor growth rate (CMO:0000344)109658275104670812Rat


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 3 2 8 12 59 25 24 11
Low 41 49 41 7 41 8 11 15 10 17 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000067932   ⟹   ENSRNOP00000059348
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1010,346,536 - 10,356,750 (-)Ensembl
Rnor_6.0 Ensembl1010,539,930 - 10,550,138 (-)Ensembl
RefSeq Acc Id: NM_001108264   ⟹   NP_001101734
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81010,853,014 - 10,863,239 (-)NCBI
mRatBN7.21010,346,538 - 10,356,768 (-)NCBI
Rnor_6.01010,539,930 - 10,550,138 (-)NCBI
Rnor_5.0109,309,794 - 9,320,036 (-)NCBI
RGSC_v3.41010,460,098 - 10,470,815 (-)RGD
Celera109,312,603 - 9,322,805 (-)RGD
Sequence:
RefSeq Acc Id: XM_008767492   ⟹   XP_008765714
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81010,853,017 - 10,861,919 (-)NCBI
mRatBN7.21010,346,546 - 10,355,448 (-)NCBI
Rnor_6.01010,539,935 - 10,549,917 (-)NCBI
Sequence:
RefSeq Acc Id: XR_010055199
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81010,856,245 - 10,863,250 (-)NCBI
Protein Sequences
Protein RefSeqs NP_001101734 (Get FASTA)   NCBI Sequence Viewer  
  XP_008765714 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL96259 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000059348
  ENSRNOP00000059348.3
Reference Protein Sequences
RefSeq Acc Id: NP_001101734   ⟸   NM_001108264
- Peptide Label: precursor
- UniProtKB: D4A5S6 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_008765714   ⟸   XM_008767492
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: ENSRNOP00000059348   ⟸   ENSRNOT00000067932
Protein Domains
Glycosyl transferase family   Glycosyltransferase subfamily 4-like N-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4A5S6-F1-model_v2 AlphaFold D4A5S6 1-303 view protein structure

Transcriptome

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

Promoters
RGD ID:13696959
Promoter ID:EPDNEW_R7484
Type:multiple initiation site
Name:Alg1_1
Description:ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase
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_6.01010,550,156 - 10,550,216EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1310700 AgrOrtholog
BioCyc Gene G2FUF-26064 BioCyc
BioCyc Pathway MANNOSYL-CHITO-DOLICHOL-BIOSYNTHESIS [protein N-glycosylation initial phase (eukaryotic)] BioCyc
BioCyc Pathway Image MANNOSYL-CHITO-DOLICHOL-BIOSYNTHESIS BioCyc
Ensembl Genes ENSRNOG00000002883 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000067932 ENTREZGENE
  ENSRNOT00000067932.3 UniProtKB/TrEMBL
Gene3D-CATH Glycogen Phosphorylase B UniProtKB/TrEMBL
InterPro ALG1-like UniProtKB/TrEMBL
  Glyco_trans_1 UniProtKB/TrEMBL
  Glyco_trans_4-like_N UniProtKB/TrEMBL
KEGG Report rno:360475 UniProtKB/TrEMBL
NCBI Gene 360475 ENTREZGENE
PANTHER CHITOBIOSYLDIPHOSPHODOLICHOL BETA-MANNOSYLTRANSFERASE UniProtKB/TrEMBL
  PTHR13036 UniProtKB/TrEMBL
Pfam Glyco_trans_4_4 UniProtKB/TrEMBL
  Glycos_transf_1 UniProtKB/TrEMBL
PhenoGen Alg1 PhenoGen
RatGTEx ENSRNOG00000002883 RatGTEx
Superfamily-SCOP UDP-Glycosyltransferase/glycogen phosphorylase UniProtKB/TrEMBL
UniProt A6K4N7_RAT UniProtKB/TrEMBL
  D4A5S6 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-02-27 Alg1  ALG1, chitobiosyldiphosphodolichol beta-mannosyltransferase  Alg1  asparagine-linked glycosylation 1, beta-1,4-mannosyltransferase homolog (S. cerevisiae)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2009-02-04 Alg1  asparagine-linked glycosylation 1, beta-1,4-mannosyltransferase homolog (S. cerevisiae)  Alg1  asparagine-linked glycosylation 1 homolog (S. cerevisiae, beta-1,4-mannosyltransferase)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-09-26 Alg1  asparagine-linked glycosylation 1 homolog (S. cerevisiae, beta-1,4-mannosyltransferase)  Alg1  asparagine-linked glycosylation 1 homolog (yeast, beta-1,4-mannosyltransferase)   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Alg1  asparagine-linked glycosylation 1 homolog (yeast, beta-1,4-mannosyltransferase)   Alg1_predicted  asparagine-linked glycosylation 1 homolog (yeast, beta-1,4-mannosyltransferase) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Alg1_predicted  asparagine-linked glycosylation 1 homolog (yeast, beta-1,4-mannosyltransferase) (predicted)      Symbol and Name status set to approved 70820 APPROVED