Alkal1 (ALK and LTK ligand 1) - Rat Genome Database

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Gene: Alkal1 (ALK and LTK ligand 1) Mus musculus
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Symbol: Alkal1
Name: ALK and LTK ligand 1
RGD ID: 1621850
MGI Page MGI
Description: Predicted to enable protein tyrosine kinase activator activity and signaling receptor binding activity. Predicted to be involved in positive regulation of MAPK cascade; positive regulation of neuron projection development; and transmembrane receptor protein tyrosine kinase signaling pathway. Predicted to be located in extracellular region and plasma membrane. Predicted to be active in extracellular space. Orthologous to human ALKAL1 (ALK and LTK ligand 1).
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: AUG-beta; Augbeta; augmentor beta; EG620393; Fam15; Fam150a; family with sequence similarity 150, member A; hypothetical protein LOC620393; uncharacterized protein LOC620393
RGD Orthologs
Human
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: GRCm39 - Mouse Genome Assembly GRCm39
Position:
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3916,429,555 - 6,464,955 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl16,429,442 - 6,464,955 (+)EnsemblGRCm39 Ensembl
GRCm3816,359,331 - 6,394,731 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl16,359,218 - 6,394,731 (+)EnsemblGRCm38mm10GRCm38
MGSCv3716,349,134 - 6,384,812 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3616,349,134 - 6,384,812 (+)NCBIMGSCv36mm8
Celera16,345,912 - 6,381,049 (+)NCBICelera
Cytogenetic Map1A1NCBI
cM Map11.89NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

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

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10349636   PMID:11042159   PMID:11076861   PMID:11217851   PMID:12466851   PMID:12520002   PMID:16141072   PMID:16141073   PMID:20562862   PMID:21873635   PMID:25331893   PMID:35412887  


Genomics

Comparative Map Data
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 Ensembl
GRCm3816,359,331 - 6,394,731 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl16,359,218 - 6,394,731 (+)EnsemblGRCm38mm10GRCm38
MGSCv3716,349,134 - 6,384,812 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3616,349,134 - 6,384,812 (+)NCBIMGSCv36mm8
Celera16,345,912 - 6,381,049 (+)NCBICelera
Cytogenetic Map1A1NCBI
cM Map11.89NCBI
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 (-)EnsemblGRCh38hg38GRCh38
GRCh37853,446,597 - 53,477,990 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36853,609,251 - 53,640,574 (-)NCBINCBI36Build 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
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8517,806,601 - 17,836,789 (-)NCBIGRCr8
mRatBN7.2513,019,729 - 13,049,913 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl513,019,429 - 13,049,948 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx515,189,353 - 15,219,628 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0516,821,441 - 16,851,558 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0516,524,040 - 16,554,319 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0512,896,136 - 12,925,571 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl512,896,558 - 12,925,571 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0517,668,931 - 17,697,947 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4513,167,027 - 13,196,791 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera512,433,940 - 12,464,105 (-)NCBICelera
Cytogenetic Map5q12NCBI
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 (-)Ensemblpanpan1.1panPan2
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_Tasha
ROS_Cfam_1.0294,441,691 - 4,461,589 (-)NCBIROS_Cfam_1.0
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 (+)EnsemblSpeTri2.0SpeTri2.0 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 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
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 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
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_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247352,915,115 - 2,941,401 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Alkal1
1009 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:90
Count of miRNA genes:84
Interacting mature miRNAs:84
Transcripts:ENSMUST00000133144
Prediction methods: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 (GRCm39)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
10412226Alpq4_malcohol preference QTL 4 (mouse)Not determined1122976684Mouse
1301891Alcp25_malcohol preference locus 25 (mouse)Not determined1125203185Mouse
1300834Cia20_mcollagen induced arthritis 20 (mouse)Not determined1125203185Mouse
1301482Morph1_mmorphine antinociception 1 (mouse)Not determined1130367747Mouse
1301275Sle10_msystematic lupus erythematosus susceptibility 10 (mouse)Not determined1288219436882352Mouse
1301370Adip1_madiposity 1 (mouse)Not determined1288219436882352Mouse
13824984Twq5_mtestis weight QTL 5 (mouse)13069992184732197Mouse
15092044Wtgrme1_mweek ten growth rate, maternal effect 1 (mouse)1328014237782236Mouse
15092046Wngrme1_mweek nine growth rate, maternal effect 1 (mouse)1328014237782236Mouse
15092048Wsigrme1_mweek six growth rate, maternal effect 1 (mouse)1328014237782236Mouse
15092050Wsegrme1_mweek seven growth rate, maternal effect 1 (mouse)1328014237782236Mouse
15092051Wegrme1_mweek eight growth rate, maternal effect 1 (mouse)1328014237782236Mouse
15092055Lgrme1_mlate growth rate, maternal effect 1 (mouse)1328014237782236Mouse
11039528Ccc3_mcolitis susceptibility in the Collaborative Cross 3 (mouse)13680142195051546Mouse
1301471Obq2_mobesity QTL 2 (mouse)Not determined1394162037941887Mouse
10043970Obq23_mobesity QTL 23 (mouse)Not determined1501266539012665Mouse


Expression


Sequence


RefSeq Acc Id: ENSMUST00000133144   ⟹   ENSMUSP00000137420
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm39 Ensembl16,429,442 - 6,464,955 (+)Ensembl
GRCm38.p6 Ensembl16,359,218 - 6,394,731 (+)Ensembl
RefSeq Acc Id: NM_001195732   ⟹   NP_001182661
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3916,429,555 - 6,464,955 (+)NCBI
GRCm3816,359,331 - 6,394,731 (+)NCBI
Celera16,345,912 - 6,381,049 (+)ENTREZGENE
cM Map1 ENTREZGENE
Sequence:
Protein Sequences
Protein RefSeqs NP_001182661 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSMUSP00000137420
  ENSMUSP00000137420.2
GenBank Protein J3QPP8 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_001182661   ⟸   NM_001195732
- Peptide Label: precursor
- UniProtKB: J3QPP8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSMUSP00000137420   ⟸   ENSMUST00000133144

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-J3QPP8-F1-model_v2 AlphaFold J3QPP8 1-127 view protein structure

Promoters
RGD ID:6818021
Promoter ID:MM_KWN:43
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Lung,   MEF_B4,   MEF_B6
Transcripts:AK087278_FAM150A,   LINCRNA_1
Position:
Mouse AssemblyChrPosition (strand)Source
MGSCv3616,349,346 - 6,349,846 (+)MPROMDB
RGD ID:6873126
Promoter ID:EPDNEW_M14
Type:single initiation site
Name:Alkal1_1
Description:Mus musculus ALK and LTK ligand 1 , mRNA.
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Mouse AssemblyChrPosition (strand)Source
GRCm3816,359,287 - 6,359,347EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene MGI:3645495 AgrOrtholog
Ensembl Genes ENSMUSG00000087247 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSMUST00000133144 ENTREZGENE
  ENSMUST00000133144.4 UniProtKB/Swiss-Prot
InterPro FAM150A/B UniProtKB/Swiss-Prot
KEGG Report mmu:620393 UniProtKB/Swiss-Prot
MGD MGI:3645495 ENTREZGENE
NCBI Gene 620393 ENTREZGENE
PANTHER ALK AND LTK LIGAND 1 UniProtKB/Swiss-Prot
  PTHR28676 UniProtKB/Swiss-Prot
Pfam FAM150 UniProtKB/Swiss-Prot
PhenoGen Alkal1 PhenoGen
UniProt ALKL1_MOUSE UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2017-06-06 Alkal1  ALK and LTK ligand 1  Fam150a  family with sequence similarity 150, member A  Symbol and/or name change 5135510 APPROVED