Atxn1l (ataxin 1 like) - Rat Genome Database

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Gene: Atxn1l (ataxin 1 like) Rattus norvegicus
Analyze
Symbol: Atxn1l
Name: ataxin 1 like (Ensembl:ataxin 1-like)
RGD ID: 9319286
Description: Predicted to enable POZ domain binding activity. Predicted to be involved in several processes, including learning or memory; regulation of DNA-templated transcription; and social behavior. Predicted to act upstream of or within several processes, including lung alveolus development; negative regulation of transcription by RNA polymerase II; and positive regulation of hematopoietic stem cell proliferation. Predicted to be located in nucleolus and nucleoplasm. Predicted to be active in nucleus. Orthologous to human ATXN1L (ataxin 1 like); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: alanine and glycine-rich protein-like; ataxin 1-like; ataxin-1-like; LOC103694328; RGD1561758
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
GRCr81954,609,852 - 54,621,024 (-)NCBIGRCr8
mRatBN7.21937,700,341 - 37,711,529 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1937,700,106 - 37,711,538 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1944,513,267 - 44,524,390 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01945,166,599 - 45,177,722 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01947,476,214 - 47,487,337 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01941,928,309 - 41,939,456 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1941,932,221 - 41,934,611 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01952,753,213 - 52,764,360 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41939,610,747 - 39,612,786 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1937,104,106 - 37,115,253 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleolus  (IEA,ISO)
nucleoplasm  (IEA,ISO)
nucleus  (IBA)

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12477932   PMID:15632090   PMID:20628574   PMID:22014525   PMID:23555280   PMID:28288114  


Genomics

Comparative Map Data
Atxn1l
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81954,609,852 - 54,621,024 (-)NCBIGRCr8
mRatBN7.21937,700,341 - 37,711,529 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1937,700,106 - 37,711,538 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1944,513,267 - 44,524,390 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01945,166,599 - 45,177,722 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01947,476,214 - 47,487,337 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01941,928,309 - 41,939,456 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1941,932,221 - 41,934,611 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01952,753,213 - 52,764,360 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41939,610,747 - 39,612,786 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera1937,104,106 - 37,115,253 (-)NCBICelera
Cytogenetic Map19q12NCBI
ATXN1L
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381671,845,976 - 71,857,328 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1671,808,439 - 71,885,268 (+)EnsemblGRCh38hg38GRCh38
GRCh371671,879,879 - 71,891,231 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361670,441,087 - 70,448,737 (+)NCBINCBI36Build 36hg18NCBI36
Celera1656,193,822 - 56,233,096 (+)NCBICelera
Cytogenetic Map16q22.2NCBI
HuRef1657,648,283 - 57,659,628 (+)NCBIHuRef
CHM1_11673,292,752 - 73,304,091 (+)NCBICHM1_1
T2T-CHM13v2.01677,663,121 - 77,674,477 (+)NCBIT2T-CHM13v2.0
Atxn1l
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398110,453,083 - 110,464,426 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8110,453,083 - 110,464,371 (-)EnsemblGRCm39 Ensembl
GRCm388109,726,451 - 109,737,794 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8109,726,451 - 109,737,739 (-)EnsemblGRCm38mm10GRCm38
MGSCv378112,250,351 - 112,261,639 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368112,250,351 - 112,261,639 (-)NCBIMGSCv36mm8
Celera8113,952,060 - 113,963,481 (-)NCBICelera
Cytogenetic Map8D3NCBI
cM Map857.22NCBI
Atxn1l
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554844,546,012 - 4,557,184 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554844,546,012 - 4,557,184 (+)NCBIChiLan1.0ChiLan1.0
ATXN1L
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21882,301,965 - 82,313,311 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11688,229,765 - 88,241,077 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01653,153,416 - 53,165,311 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11671,684,836 - 71,696,176 (+)NCBIpanpan1.1PanPan1.1panPan2
ATXN1L
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1577,616,484 - 77,627,411 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl577,619,861 - 77,621,924 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha577,577,598 - 77,588,507 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0578,055,783 - 78,066,700 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl578,055,816 - 78,066,681 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1577,875,883 - 77,886,800 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0577,698,627 - 77,709,528 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0578,197,875 - 78,208,804 (+)NCBIUU_Cfam_GSD_1.0
Atxn1l
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934937,636,007 - 37,647,432 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647521,941,684 - 21,953,105 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647521,941,682 - 21,953,071 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATXN1L
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl614,836,752 - 14,848,422 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1614,836,732 - 14,848,474 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2614,454,455 - 14,464,663 (+)NCBISscrofa10.2Sscrofa10.2susScr3
ATXN1L
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1554,987,876 - 54,996,932 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl554,989,527 - 54,991,596 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604717,783,291 - 17,823,923 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Atxn1l
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462474614,119,440 - 14,130,429 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462474614,119,413 - 14,130,622 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Atxn1l
14 total Variants

QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
9589102Slep13Serum leptin concentration QTL 134.630.001blood leptin amount (VT:0005667)plasma leptin level (CMO:0000781)1956937445569374Rat
8694186Bw152Body weight QTL 1523.340.001body mass (VT:0001259)body weight gain (CMO:0000420)1956937445569374Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19218792746708701Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)19231612147316121Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)19320477748204777Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19745724942983518Rat
724565Tcas5Tongue tumor susceptibility QTL 510.04tongue integrity trait (VT:0010553)number of squamous cell tumors of the tongue with diameter greater than 3 mm (CMO:0001950)19997775339654489Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191082797043544039Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)191560502346559041Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)192481797839654489Rat
1354600Salc2Saline consumption QTL 29.910.001drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)192753020737947399Rat
1354607Gmadr1Adrenal mass QTL 15.83adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)192753020737947399Rat
1354633Bw28Body weight QTL 286.04body mass (VT:0001259)body weight (CMO:0000012)192753020737947399Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat


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 26 35 19 18 19 1 1 72 35 39 11 1
Low 3 16 22 22 1 22 7 10 2 2 7
Below cutoff 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001401111 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_001077096 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006222717 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255606 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_006255607 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772563 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008772565 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774232 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774233 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_008774234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_226598 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AC123500 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC098774 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH473972 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  FQ231124 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  JAXUCZ010000019 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSRNOT00000059225   ⟹   ENSRNOP00000055994
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1937,700,350 - 37,711,456 (-)Ensembl
Rnor_6.0 Ensembl1941,932,221 - 41,934,611 (+)Ensembl
RefSeq Acc Id: ENSRNOT00000097735   ⟹   ENSRNOP00000084033
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1937,700,106 - 37,711,538 (-)Ensembl
RefSeq Acc Id: NM_001401111   ⟹   NP_001388040
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81954,609,852 - 54,621,024 (-)NCBI
mRatBN7.21937,700,342 - 37,711,529 (-)NCBI
RefSeq Acc Id: XM_008772563   ⟹   XP_008770785
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81954,609,855 - 54,621,010 (-)NCBI
mRatBN7.21937,700,341 - 37,711,524 (-)NCBI
Rnor_6.01941,928,336 - 41,939,456 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001388040 (Get FASTA)   NCBI Sequence Viewer  
  XP_008770785 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL92512 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000055994.2
  ENSRNOP00000084033
  ENSRNOP00000084033.1
Reference Protein Sequences
RefSeq Acc Id: XP_008770785   ⟸   XM_008772563
- Peptide Label: isoform X1
- UniProtKB: D3ZBC4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000055994   ⟸   ENSRNOT00000059225
RefSeq Acc Id: ENSRNOP00000084033   ⟸   ENSRNOT00000097735
RefSeq Acc Id: NP_001388040   ⟸   NM_001401111
- UniProtKB: D3ZBC4 (UniProtKB/TrEMBL)
Protein Domains
AXH

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZBC4-F1-model_v2 AlphaFold D3ZBC4 1-679 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:9319286 AgrOrtholog
BioCyc Gene G2FUF-5715 BioCyc
Ensembl Genes ENSRNOG00000038766 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000059225.4 UniProtKB/TrEMBL
  ENSRNOT00000097735 ENTREZGENE
  ENSRNOT00000097735.1 UniProtKB/TrEMBL
Gene3D-CATH Hedgehog/Intein (Hint) domain UniProtKB/TrEMBL
InterPro Ataxin-1_N UniProtKB/TrEMBL
  ATAXIN1-like UniProtKB/TrEMBL
  Ataxin_AXH_dom UniProtKB/TrEMBL
  Ataxin_AXH_dom_sf UniProtKB/TrEMBL
KEGG Report rno:103694328 UniProtKB/TrEMBL
NCBI Gene LOC103694328 ENTREZGENE
PANTHER ATAXIN-1-LIKE UniProtKB/TrEMBL
  PTHR13392 UniProtKB/TrEMBL
Pfam ATXN-1_C UniProtKB/TrEMBL
  AXH UniProtKB/TrEMBL
PhenoGen Atxn1l PhenoGen
PROSITE AXH UniProtKB/TrEMBL
RatGTEx ENSRNOG00000038766 RatGTEx
SMART AXH UniProtKB/TrEMBL
Superfamily-SCOP SSF102031 UniProtKB/TrEMBL
UniProt D3ZBC4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2023-10-13 Atxn1l  ataxin 1 like  Atxn1l1  ataxin 1-like 1  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2023-10-13 Atxn1l1  ataxin 1-like 1  Atxn1l  ataxin 1-like  Name and Symbol changed 629549 APPROVED
2022-03-10 Atxn1l  ataxin 1-like  LOC103694328  alanine and glycine-rich protein-like  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2022-03-10 LOC103694328  alanine and glycine-rich protein-like  Atxn1l  ataxin 1-like  Data merged from RGD:1561758 737654 PROVISIONAL
2014-08-25 LOC103694328  alanine and glycine-rich protein-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2010-05-07 Atxn1l  ataxin 1-like  RGD1561758  similar to Ataxin-1 (Spinocerebellar ataxia type 1 protein homolog)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1561758  similar to Ataxin-1 (Spinocerebellar ataxia type 1 protein homolog)   RGD1561758_predicted  similar to Ataxin-1 (Spinocerebellar ataxia type 1 protein homolog) (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1561758_predicted  similar to Ataxin-1 (Spinocerebellar ataxia type 1 protein homolog) (predicted)  LOC307970  similar to Ataxin-1 (Spinocerebellar ataxia type 1 protein homolog)  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC307970  similar to Ataxin-1 (Spinocerebellar ataxia type 1 protein homolog)      Symbol and Name status set to provisional 70820 PROVISIONAL