Alms1 (ALMS1, centrosome and basal body associated protein) - Rat Genome Database

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Gene: Alms1 (ALMS1, centrosome and basal body associated protein) Rattus norvegicus
Analyze
Symbol: Alms1
Name: ALMS1, centrosome and basal body associated protein
RGD ID: 1311590
Description: Enables protein C-terminus binding activity. Involved in positive regulation of endocytosis. Located in centriole and ciliary basal body. Human ortholog(s) of this gene implicated in Alstrom syndrome. Orthologous to human ALMS1 (ALMS1 centrosome and basal body associated protein); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Alstrom syndrome 1 homolog; Alstrom syndrome protein 1; LOC297408
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Allele / Splice: Alms1em1Mcwi  
Genetic Models: SS-Alms1em1Mcwi-/- SS-Alms1em1Mcwi
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24118,125,581 - 118,226,005 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4118,125,607 - 118,226,005 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4123,606,944 - 123,707,620 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.04119,382,049 - 119,482,408 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.04117,995,664 - 118,095,939 (+)NCBIRnor_WKY
Rnor_6.04117,371,544 - 117,472,310 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4117,371,659 - 117,472,198 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04181,947,469 - 182,048,235 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44119,846,037 - 119,946,085 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14120,087,754 - 120,190,647 (+)NCBI
Celera4107,106,971 - 107,206,695 (+)NCBICelera
Cytogenetic Map4q34NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


References

References - curated
# Reference Title Reference Citation
1. Fat aussie--a new Alstrom syndrome mouse showing a critical role for ALMS1 in obesity, diabetes, and spermatogenesis. Arsov T, etal., Mol Endocrinol. 2006 Jul;20(7):1610-22. Epub 2006 Mar 2.
2. Alms1-disrupted mice recapitulate human Alstrom syndrome. Collin GB, etal., Hum Mol Genet. 2005 Aug 15;14(16):2323-33. Epub 2005 Jul 6.
3. Mutations in ALMS1 cause obesity, type 2 diabetes and neurosensory degeneration in Alstrom syndrome. Collin GB, etal., Nat Genet. 2002 May;31(1):74-8. Epub 2002 Apr 8.
4. 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.
5. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
6. Subcellular localization of ALMS1 supports involvement of centrosome and basal body dysfunction in the pathogenesis of obesity, insulin resistance, and type 2 diabetes. Hearn T, etal., Diabetes. 2005 May;54(5):1581-7.
7. Alstrom Syndrome protein ALMS1 localizes to basal bodies of cochlear hair cells and regulates cilium-dependent planar cell polarity. Jagger D, etal., Hum Mol Genet. 2011 Feb 1;20(3):466-81. doi: 10.1093/hmg/ddq493. Epub 2010 Nov 11.
8. Role of Alström syndrome 1 in the regulation of blood pressure and renal function. Jaykumar AB, etal., JCI Insight. 2018 Nov 2;3(21). pii: 95076. doi: 10.1172/jci.insight.95076.
9. Novel ALMS1 mutations in Chinese patients with Alstrom syndrome. Liang X, etal., Mol Vis. 2013 Sep 7;19:1885-91. eCollection 2013.
10. Syndromic obesity and diabetes: changes in body composition with age and mutation analysis of ALMS1 in 12 United Kingdom kindreds with Alstrom syndrome. Minton JA, etal., J Clin Endocrinol Metab. 2006 Aug;91(8):3110-6. Epub 2006 May 23.
11. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
12. Common variations in the ALMS1 gene do not contribute to susceptibility to type 2 diabetes in a large white UK population. Patel S, etal., Diabetologia. 2006 Jun;49(6):1209-13. Epub 2006 Apr 7.
13. Molecular approach in the study of Alstrom syndrome: analysis of ten Spanish families. Pineiro-Gallego T, etal., Mol Vis. 2012;18:1794-802. Epub 2012 Jul 3.
14. Defective adaptive thermogenesis contributes to metabolic syndrome and liver steatosis in obese mice. Poekes L, etal., Clin Sci (Lond). 2017 Feb 1;131(4):285-296. doi: 10.1042/CS20160469. Epub 2016 Nov 1.
15. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
16. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
17. Comprehensive gene review and curation RGD comprehensive gene curation
Additional References at PubMed
PMID:17206865   PMID:20844083   PMID:21399614   PMID:22693585  


Genomics

Comparative Map Data
Alms1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.24118,125,581 - 118,226,005 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl4118,125,607 - 118,226,005 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx4123,606,944 - 123,707,620 (+)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.04119,382,049 - 119,482,408 (+)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.04117,995,664 - 118,095,939 (+)NCBIRnor_WKY
Rnor_6.04117,371,544 - 117,472,310 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl4117,371,659 - 117,472,198 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.04181,947,469 - 182,048,235 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.44119,846,037 - 119,946,085 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.14120,087,754 - 120,190,647 (+)NCBI
Celera4107,106,971 - 107,206,695 (+)NCBICelera
Cytogenetic Map4q34NCBI
ALMS1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38273,385,758 - 73,609,919 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl273,385,758 - 73,625,166 (+)EnsemblGRCh38hg38GRCh38
GRCh37273,612,886 - 73,837,046 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36273,466,394 - 73,690,554 (+)NCBINCBI36Build 36hg18NCBI36
Build 34273,524,540 - 73,748,701NCBI
Celera273,463,729 - 73,687,908 (+)NCBICelera
Cytogenetic Map2p13.1NCBI
HuRef273,348,377 - 73,572,081 (+)NCBIHuRef
CHM1_1273,543,709 - 73,767,862 (+)NCBICHM1_1
T2T-CHM13v2.0273,398,811 - 73,623,015 (+)NCBIT2T-CHM13v2.0
Alms1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39685,564,482 - 85,698,973 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl685,564,513 - 85,679,735 (+)EnsemblGRCm39 Ensembl
GRCm38685,587,498 - 85,726,611 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl685,587,531 - 85,702,753 (+)EnsemblGRCm38mm10GRCm38
MGSCv37685,537,525 - 85,652,745 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36685,553,189 - 85,668,300 (+)NCBIMGSCv36mm8
Celera687,559,405 - 87,708,447 (+)NCBICelera
Cytogenetic Map6C3NCBI
Alms1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542412,130,607 - 12,258,522 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542412,130,496 - 12,258,684 (-)NCBIChiLan1.0ChiLan1.0
ALMS1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.12A74,926,650 - 75,158,734 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl2A74,926,650 - 75,152,139 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v02A73,438,657 - 73,671,313 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
ALMS1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11749,301,397 - 49,513,729 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1749,301,606 - 49,513,625 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1748,945,100 - 49,160,487 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01750,163,595 - 50,379,703 (-)NCBIROS_Cfam_1.0
UMICH_Zoey_3.11749,179,726 - 49,395,827 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01749,247,116 - 49,462,601 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01749,806,151 - 50,021,717 (-)NCBIUU_Cfam_GSD_1.0
Alms1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440629211,228,877 - 11,418,533 (-)NCBIHiC_Itri_2
SpeTri2.0NW_00493649117,152,759 - 17,342,648 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ALMS1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl369,253,750 - 69,417,189 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1369,253,742 - 69,417,043 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2372,455,187 - 72,619,961 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ALMS1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11433,571,894 - 33,795,404 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1433,573,296 - 33,789,549 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604578,295,878 - 78,526,188 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Alms1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624762128,491 - 269,006 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624762129,349 - 268,945 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Alms1
658 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:136
Count of miRNA genes:113
Interacting mature miRNAs:124
Transcripts:ENSRNOT00000045735
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
2303168Bp330Blood pressure QTL 3304.250.017arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)45214602146446691Rat
2316958Gluco58Glucose level QTL 5810blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)411320076180699135Rat
1358352Srcrt3Stress Responsive Cort QTL 32.29blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)438465774146803430Rat
1576305Emca6Estrogen-induced mammary cancer QTL 65.8mammary gland integrity trait (VT:0010552)mammary tumor number (CMO:0000343)444463720155883716Rat
1354612Foco1Food consumption QTL 18.87eating behavior trait (VT:0001431)food intake rate (CMO:0000427)444463908148090542Rat
1354660Salc1Saline consumption QTL 111.26drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)444463908148090542Rat
2312567Glom19Glomerulus QTL 191.90.006kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)445456990146803430Rat
1298082Stresp4Stress response QTL 4blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)450119848146803430Rat
70200Alc18Alcohol consumption QTL 189.2drinking behavior trait (VT:0001422)ethanol intake volume to total fluid intake volume ratio (CMO:0001591)456647873149491524Rat
1641833Alc21Alcohol consumption QTL 218.60.0001drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)456698790126192555Rat
738009Sach4Saccharine consumption QTL 44.90.000016consumption behavior trait (VT:0002069)saccharin intake volume to total fluid intake volume ratio (CMO:0001601)459948935154902892Rat
738016Alc16Alcohol consumption QTL 163.60.00015consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
738031Alc14Alcohol consumption QTL 147.60.00003consumption behavior trait (VT:0002069)ethanol drink intake rate to body weight ratio (CMO:0001616)459948935154902892Rat
61418Pia5Pristane induced arthritis QTL 54.5joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)462277855128289560Rat
631674Iddm14Insulin dependent diabetes mellitus QTL 14blood glucose amount (VT:0000188)plasma glucose level (CMO:0000042)464528739157573521Rat
61330Eau1Experimental allergic uveoretinitis QTL 10.0003uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)470362013132642728Rat
631646Stl4Serum triglyceride level QTL 46.50.0001blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)473169846132642728Rat
724522Bp146Blood pressure QTL 1462.20.0021arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)473630210118630210Rat
2302051Pia28Pristane induced arthritis QTL 285.30.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)473630210118630210Rat
631662Hcar2Hepatocarcinoma resistance QTL 23.10.0003liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)478878504123878504Rat
738015Pia9Pristane induced arthritis QTL 94.50.048joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)480694870125694870Rat
2306899Bp338Blood pressure QTL 3380.071arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)481006124120102625Rat
1641919Alc22Alcohol consumption QTL 220.0005drinking behavior trait (VT:0001422)ethanol drink intake rate (CMO:0001407)481192555126192555Rat
70177Xhs1X-ray hypersensitivity QTL 125.1intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)482798864152731274Rat
1576316Ept5Estrogen-induced pituitary tumorigenesis QTL 53.8pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)483428419177635233Rat
634334Xhs3X-ray hypersensitivity QTL 310intestine integrity trait (VT:0010554)post-insult time to onset of moribundity (CMO:0001896)484728680129854654Rat
1582232Gluco25Glucose level QTL 253.60.0023blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)485253748148090731Rat
12798523Anxrr56Anxiety related response QTL 562.830.05locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)485253748150276390Rat
1358202Gluco11Glucose level QTL 112.40.02adipocyte glucose uptake trait (VT:0004185)absolute change in adipocyte glucose uptake (CMO:0000873)485379421167139601Rat
61476Aia3Adjuvant induced arthritis QTL 33.9joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)486730991131730991Rat
1578662Bss15Bone structure and strength QTL 1519.6femur width (VT:1000666)femoral neck width (CMO:0001695)487327165132327165Rat
1578670Bss14Bone structure and strength QTL 1416.4femur morphology trait (VT:0000559)bone trabecular cross-sectional area (CMO:0002311)487327165132327165Rat
1578655Bmd11Bone mineral density QTL 1111femur mineral mass (VT:0010011)total volumetric bone mineral density (CMO:0001728)490850165135850165Rat
634335Anxrr16Anxiety related response QTL 167.22locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)493308457167139447Rat
631689Scl4Serum cholesterol level QTL 41.90.008blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)495174120140174120Rat
61434Cia3Collagen induced arthritis QTL 34.8joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)4103194656148194656Rat
2302049Pia32Pristane induced arthritis QTL 325.10.001blood autoantibody amount (VT:0003725)serum immunoglobulin G-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002112)4105789505150789505Rat
731165Uae21Urinary albumin excretion QTL 212.40.0001urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)4106649412151649412Rat
61406Scwia1Streptococcal cell wall induced arthritis QTL 12.3joint integrity trait (VT:0010548)experimental arthritis severity measurement (CMO:0001459)4106805662151805662Rat
7207480Bss105Bone structure and strength QTL 1058.1femur strength trait (VT:0010010)femur midshaft polar moment of inertia (CMO:0001669)4109827074154827074Rat
1549832Bss3Bone structure and strength QTL 311femur morphology trait (VT:0000559)femur midshaft cortical cross-sectional area (CMO:0001663)4109827074154827074Rat
737821Hcar9Hepatocarcinoma resistance QTL 93.7liver integrity trait (VT:0010547)volume of individual liver tumorous lesion (CMO:0001078)4109866907167139601Rat
1331759Hrtrt13Heart rate QTL 133.54628heart pumping trait (VT:2000009)heart rate (CMO:0000002)4110275411168266883Rat
6478760Anxrr45Anxiety related response QTL 450.06717locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
6478763Anxrr46Anxiety related response QTL 460.07428locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)4110870972155870972Rat
12798519Anxrr54Anxiety related response QTL 542.540.05locomotor behavior trait (VT:0001392)distance moved per unit of time into, out of or within a discrete space in an experimental apparatus (CMO:0001493)4114627026159627026Rat
1300116Hrtrt5Heart rate QTL 53.76heart pumping trait (VT:2000009)heart rate (CMO:0000002)4116179486151161268Rat

Markers in Region
RH136742  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.24118,219,748 - 118,219,872 (+)MAPPERmRatBN7.2
Rnor_6.04117,466,058 - 117,466,181NCBIRnor6.0
Rnor_5.04182,041,983 - 182,042,106UniSTSRnor5.0
RGSC_v3.44119,940,698 - 119,940,821UniSTSRGSC3.4
Celera4107,200,443 - 107,200,566UniSTS
Cytogenetic Map4q34UniSTS


Genetic Models
This gene Alms1 is modified in the following models/strains

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 16 22 6 16 6 71 27 41 10
Low 3 27 35 35 3 35 8 10 3 8 1 8
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000045735   ⟹   ENSRNOP00000050674
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4118,125,607 - 118,226,005 (+)Ensembl
Rnor_6.0 Ensembl4117,371,659 - 117,472,198 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000101178   ⟹   ENSRNOP00000079051
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4118,135,247 - 118,226,005 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000109581   ⟹   ENSRNOP00000076984
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4118,125,607 - 118,222,762 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000113260   ⟹   ENSRNOP00000080223
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl4118,125,607 - 118,226,005 (+)Ensembl
RefSeq Acc Id: NM_001106604   ⟹   NP_001100074
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24118,125,607 - 118,226,005 (+)NCBI
Rnor_6.04117,371,544 - 117,472,310 (+)NCBI
Rnor_5.04181,947,469 - 182,048,235 (+)NCBI
RGSC_v3.44119,846,037 - 119,946,085 (+)RGD
Celera4107,106,971 - 107,206,695 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039107348   ⟹   XP_038963276
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24118,125,581 - 118,226,005 (+)NCBI
RefSeq Acc Id: XM_039107349   ⟹   XP_038963277
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24118,125,581 - 118,226,005 (+)NCBI
RefSeq Acc Id: XM_039107350   ⟹   XP_038963278
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24118,125,581 - 118,226,005 (+)NCBI
RefSeq Acc Id: XM_039107352   ⟹   XP_038963280
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24118,125,581 - 118,226,005 (+)NCBI
RefSeq Acc Id: XM_039107353   ⟹   XP_038963281
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24118,125,581 - 118,226,005 (+)NCBI
RefSeq Acc Id: XM_039107354   ⟹   XP_038963282
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24118,146,549 - 118,226,005 (+)NCBI
RefSeq Acc Id: XM_039107355   ⟹   XP_038963283
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.24118,125,581 - 118,176,973 (+)NCBI
Reference Sequences
RefSeq Acc Id: NP_001100074   ⟸   NM_001106604
- Sequence:
RefSeq Acc Id: ENSRNOP00000050674   ⟸   ENSRNOT00000045735
RefSeq Acc Id: XP_038963276   ⟸   XM_039107348
- Peptide Label: isoform X1
RefSeq Acc Id: XP_038963281   ⟸   XM_039107353
- Peptide Label: isoform X5
RefSeq Acc Id: XP_038963277   ⟸   XM_039107349
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038963280   ⟸   XM_039107352
- Peptide Label: isoform X4
RefSeq Acc Id: XP_038963278   ⟸   XM_039107350
- Peptide Label: isoform X3
RefSeq Acc Id: XP_038963283   ⟸   XM_039107355
- Peptide Label: isoform X7
RefSeq Acc Id: XP_038963282   ⟸   XM_039107354
- Peptide Label: isoform X6
RefSeq Acc Id: ENSRNOP00000080223   ⟸   ENSRNOT00000113260
RefSeq Acc Id: ENSRNOP00000079051   ⟸   ENSRNOT00000101178
RefSeq Acc Id: ENSRNOP00000076984   ⟸   ENSRNOT00000109581
Protein Domains
ALMS_motif

Transcriptome

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

Promoters
RGD ID:13693199
Promoter ID:EPDNEW_R3722
Type:multiple initiation site
Name:Alms1_1
Description:ALMS1, centrosome and basal body associated 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_6.04117,371,626 - 117,371,686EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1311590 AgrOrtholog
BioCyc Gene G2FUF-43937 BioCyc
Ensembl Genes ENSRNOG00000022343 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000050674 ENTREZGENE
  ENSRNOP00000050674.5 UniProtKB/TrEMBL
  ENSRNOP00000076984 ENTREZGENE
  ENSRNOP00000076984.1 UniProtKB/TrEMBL
  ENSRNOP00000079051 ENTREZGENE
  ENSRNOP00000079051.1 UniProtKB/TrEMBL
  ENSRNOP00000080223 ENTREZGENE
  ENSRNOP00000080223.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000045735 ENTREZGENE
  ENSRNOT00000045735.6 UniProtKB/TrEMBL
  ENSRNOT00000101178 ENTREZGENE
  ENSRNOT00000101178.1 UniProtKB/TrEMBL
  ENSRNOT00000109581 ENTREZGENE
  ENSRNOT00000109581.1 UniProtKB/TrEMBL
  ENSRNOT00000113260 ENTREZGENE
  ENSRNOT00000113260.1 UniProtKB/TrEMBL
InterPro ALMS1 UniProtKB/TrEMBL
  ALMS_motif UniProtKB/TrEMBL
  ALMS_repeat UniProtKB/TrEMBL
NCBI Gene 297408 ENTREZGENE
PANTHER PTHR21553:SF22 UniProtKB/TrEMBL
Pfam ALMS_motif UniProtKB/TrEMBL
  ALMS_repeat UniProtKB/TrEMBL
PhenoGen Alms1 PhenoGen
UniProt A0A8I5XVN1_RAT UniProtKB/TrEMBL
  A0A8I5ZSK7_RAT UniProtKB/TrEMBL
  A0A8I6G4M9_RAT UniProtKB/TrEMBL
  F1LVG9_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-05-15 Alms1  Alstrom syndrome 1 homolog (human)  Alms1  Alstrom syndrome 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-02-26 Alms1  Alstrom syndrome 1  Alms1_predicted  Alstrom syndrome 1 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-12 Alms1_predicted  Alstrom syndrome 1 (predicted)      Symbol and Name status set to approved 70820 APPROVED