Alkal1 (ALK and LTK ligand 1) - 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 Behavioral & Substance Use Disorder 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 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
Advanced Search (OLGA)
Gene: Alkal1 (ALK and LTK ligand 1) Rattus norvegicus
Analyze
Symbol: Alkal1
Name: ALK and LTK ligand 1
RGD ID: 1583530
Description: Predicted to enable protein tyrosine kinase activator activity and signaling receptor binding activity. Predicted to be involved in positive regulation of ERK1 and ERK2 cascade; positive regulation of ERK5 cascade; and positive regulation of neuron projection development. Predicted to act upstream of or within cell surface receptor protein tyrosine kinase signaling pathway. Predicted to be located in extracellular region. Predicted to be active in extracellular space. Orthologous to human ALKAL1 (ALK and LTK ligand 1); INTERACTS WITH dimethylarsinic acid; manganese(II) chloride; amiodarone (ortholog).
Type: protein-coding
RefSeq Status: INFERRED
Previously known as: Fam150a; family with sequence similarity 150, member A; hypothetical protein LOC681161; LOC100910984; LOC681161; protein FAM150A-like
RGD Orthologs
Human
Mouse
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8517,806,601 - 17,836,789 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl517,806,608 - 17,836,843 (-)EnsemblGRCr8
mRatBN7.2513,019,729 - 13,049,913 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl513,019,429 - 13,049,948 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx515,189,353 - 15,219,628 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0516,821,441 - 16,851,558 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0516,524,040 - 16,554,319 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0512,896,136 - 12,925,571 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl512,896,558 - 12,925,571 (-)Ensemblrn6Rnor6.0
Rnor_5.0517,668,931 - 17,697,947 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4513,167,027 - 13,196,791 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera512,433,940 - 12,464,105 (-)NCBICelera
Cytogenetic Map5q12NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

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. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:26418745  


Genomics

Comparative Map Data
Alkal1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8517,806,601 - 17,836,789 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl517,806,608 - 17,836,843 (-)EnsemblGRCr8
mRatBN7.2513,019,729 - 13,049,913 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl513,019,429 - 13,049,948 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx515,189,353 - 15,219,628 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0516,821,441 - 16,851,558 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0516,524,040 - 16,554,319 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0512,896,136 - 12,925,571 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl512,896,558 - 12,925,571 (-)Ensemblrn6Rnor6.0
Rnor_5.0517,668,931 - 17,697,947 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4513,167,027 - 13,196,791 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera512,433,940 - 12,464,105 (-)NCBICelera
Cytogenetic Map5q12NCBI
ALKAL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38852,534,037 - 52,565,430 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl852,534,037 - 52,565,430 (-)Ensemblhg38GRCh38
GRCh37853,446,597 - 53,477,990 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36853,609,251 - 53,640,574 (-)NCBIBuild 36Build 36hg18NCBI36
Celera849,436,928 - 49,468,353 (-)NCBICelera
Cytogenetic Map8q11.23NCBI
HuRef848,914,390 - 48,945,583 (-)NCBIHuRef
CHM1_1853,498,972 - 53,530,389 (-)NCBICHM1_1
T2T-CHM13v2.0852,910,076 - 52,941,473 (-)NCBIT2T-CHM13v2.0
Alkal1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3916,429,555 - 6,464,955 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl16,429,442 - 6,464,955 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm3816,359,331 - 6,394,731 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl16,359,218 - 6,394,731 (+)Ensemblmm10GRCm38
MGSCv3716,349,134 - 6,384,812 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv3616,349,134 - 6,384,812 (+)NCBIMGSCv36mm8
Celera16,345,912 - 6,381,049 (+)NCBICelera
Cytogenetic Map1A1NCBI
cM Map11.89NCBI
ALKAL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2768,168,573 - 68,200,225 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1843,893,772 - 43,925,387 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0848,957,611 - 48,989,157 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1846,341,310 - 46,372,344 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl846,341,310 - 46,372,344 (-)EnsemblpanPan2panpan1.1
ALKAL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1294,375,877 - 4,395,708 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha294,815,737 - 4,835,644 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0294,441,691 - 4,461,589 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl294,441,641 - 4,461,959 (-)EnsemblROS_Cfam_1.0 Ensembl
Alkal1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530375,186,430 - 75,209,168 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936590376,301 - 396,488 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_004936590376,301 - 396,488 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ALKAL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl477,673,244 - 77,683,074 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1477,673,200 - 77,682,697 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
ALKAL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1848,641,163 - 48,672,392 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl848,645,771 - 48,669,954 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366603993,330,791 - 93,359,214 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Alkal1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247352,914,937 - 2,941,798 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247352,915,115 - 2,941,401 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Alkal1
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11141,543,012 - 141,571,439 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Alkal1
131 total Variants

QTLs in Region (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2293666Bmd38Bone mineral density QTL 384.4femur size trait (VT:1000369)femoral neck cortical cross-sectional area (CMO:0001702)51373115343590997Rat
1576314Eutr1Estrogen induced uterine response QTL 1uterus integrity trait (VT:0010575)pyometritis severity score (CMO:0002009)5692228281330203Rat
1300117Hrtrt8Heart rate QTL 83.49heart pumping trait (VT:2000009)heart rate (CMO:0000002)5862723052665523Rat
7394712Emca13Estrogen-induced mammary cancer QTL 13mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51460607859606078Rat
634305Mamtr1Mammary tumor resistance QTL 10.0001mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)51757663362576633Rat
1578774Tcas8Tongue tumor susceptibility QTL 83.47tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)51570745160707451Rat
1331771Rf35Renal function QTL 354.36965kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906491770353Rat
2312562Pur18Proteinuria QTL 182.60.001urine total protein amount (VT:0000032)urine total protein excretion rate (CMO:0000756)5692228237468560Rat
8662454Vetf3Vascular elastic tissue fragility QTL 327.4artery integrity trait (VT:0010639)number of ruptures of the internal elastic lamina of the abdominal aorta and iliac arteries (CMO:0002562)5706553574335773Rat
1641903Alcrsp3Alcohol response QTL 3response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)51748608062486080Rat
1331756Rf34Renal function QTL 344.16275kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)51001906487027358Rat
631827Alc4Alcohol consumption QTL 43.5consumption behavior trait (VT:0002069)ethanol drink intake rate (CMO:0001407)51297048025683802Rat
2303577Gluco47Glucose level QTL 473blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)51652001961520019Rat
1641922Alcrsp8Alcohol response QTL 8alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)51748608062486080Rat
2313085Bss59Bone structure and strength QTL 592.90.0001long bone metaphysis morphology trait (VT:0000133)tibia midshaft total cross-sectional area (CMO:0001715)5862723053627230Rat

Markers in Region
D2Ucl27  
Rat AssemblyChrPosition (strand)SourceJBrowse
Rnor_5.0517,681,269 - 17,681,572NCBIRnor5.0
Rnor_5.0936,587,412 - 36,587,713NCBIRnor5.0
Rnor_5.01877,702,330 - 77,702,631NCBIRnor5.0
Rnor_5.0936,623,312 - 36,623,613NCBIRnor5.0
Rnor_5.01835,147,088 - 35,147,389NCBIRnor5.0
Rnor_5.01835,285,996 - 35,286,297NCBIRnor5.0
RGSC_v3.41838,042,280 - 38,042,580UniSTSRGSC3.4
RGSC_v3.4513,180,114 - 13,180,416UniSTSRGSC3.4
Celera512,447,440 - 12,447,748UniSTS
Cytogenetic Map5q12UniSTS


Expression

RNA-SEQ Expression

alimentary part of gastrointestinal system
appendage
ectoderm
endocrine system
endoderm
hemolymphoid system
mesenchyme
mesoderm
musculoskeletal system
nervous system
renal system
reproductive system
respiratory system
8 5 9 6 15 2 17 4 1 8 1 27 15

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001302143 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAXUCZ010000005 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSRNOT00000073694   ⟹   ENSRNOP00000066096
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl517,806,608 - 17,836,843 (-)Ensembl
mRatBN7.2 Ensembl513,019,429 - 13,049,948 (-)Ensembl
Rnor_6.0 Ensembl512,896,558 - 12,925,571 (-)Ensembl
RefSeq Acc Id: NM_001302143   ⟹   NP_001289072
RefSeq Status: INFERRED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8517,806,601 - 17,836,789 (-)NCBI
mRatBN7.2513,019,729 - 13,049,913 (-)NCBI
Rnor_6.0512,896,136 - 12,925,571 (-)NCBI
Celera512,433,940 - 12,464,105 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001289072 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000066096
  ENSRNOP00000066096.1
RefSeq Acc Id: NP_001289072   ⟸   NM_001302143
- Peptide Label: precursor
- UniProtKB: M0R9C8 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000066096   ⟸   ENSRNOT00000073694

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R9C8-F1-model_v2 AlphaFold M0R9C8 1-127 view protein structure

Transcriptome

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

Promoters
RGD ID:13693546
Promoter ID:EPDNEW_R4064
Type:single initiation site
Name:Alkal1_1
Description:ALK and LTK ligand 1
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_6.0512,925,613 - 12,925,673EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1583530 AgrOrtholog
BioCyc Gene G2FUF-42175 BioCyc
Ensembl Genes ENSRNOG00000048703 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000073694 ENTREZGENE
  ENSRNOT00000073694.3 UniProtKB/TrEMBL
InterPro FAM150 UniProtKB/TrEMBL
KEGG Report rno:100910984 UniProtKB/TrEMBL
NCBI Gene Alkal1 ENTREZGENE
PANTHER ALK AND LTK LIGAND 1 UniProtKB/TrEMBL
  PTHR28676 UniProtKB/TrEMBL
Pfam FAM150 UniProtKB/TrEMBL
PhenoGen Alkal1 PhenoGen
RatGTEx ENSRNOG00000048703 RatGTEx
UniProt M0R9C8 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-02-09 Alkal1  ALK and LTK ligand 1  Fam150a  family with sequence similarity 150, member A  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2014-07-21 Fam150a  family with sequence similarity 150, member A  LOC100910984  protein FAM150A-like  Data merged from RGD:6495634 737654 APPROVED
2012-07-05 LOC100910984  protein FAM150A-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-03-05 Fam150a  family with sequence similarity 150, member A  LOC681161  hypothetical protein LOC681161  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-01-09 LOC681161  hypothetical protein LOC681161  LOC683877  hypothetical protein LOC683877  Data merged from RGD:1597802 1643240 APPROVED
2006-11-20 LOC683877  hypothetical protein LOC683877      Symbol and Name status set to provisional 70820 PROVISIONAL
2006-11-19 LOC681161  hypothetical protein LOC681161      Symbol and Name status set to provisional 70820 PROVISIONAL