Atrx (ATRX chromatin remodeler) - Rat Genome Database

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Gene: Atrx (ATRX chromatin remodeler) Chinchilla lanigera
Analyze
Symbol: Atrx
Name: ATRX chromatin remodeler
RGD ID: 8904119
Description: ENCODES a protein that exhibits chromatin binding (ortholog); chromo shadow domain binding (ortholog); DNA translocase activity (ortholog); INVOLVED IN cellular response to hydroxyurea (ortholog); chromatin organization (ortholog); chromatin remodeling (ortholog); ASSOCIATED WITH adenoid cystic carcinoma (ortholog); adrenocortical carcinoma (ortholog); alpha thalassemia-X-linked intellectual disability syndrome (ortholog); FOUND IN chromosome, subtelomeric region (ortholog); chromosome, telomeric region (ortholog); ciliary basal body (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: alpha thalassemia/mental retardation syndrome X-linked; ATRX, chromatin remodeler; transcriptional regulator ATRX
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955557947,167 - 1,252,724 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955557947,368 - 1,252,701 (-)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View
adenoid cystic carcinoma  (ISO)
adrenocortical carcinoma  (ISO)
alpha thalassemia-X-linked intellectual disability syndrome  (ISO)
alpha-thalassemia myelodysplasia syndrome  (ISO)
anaplastic astrocytoma  (ISO)
atypical teratoid rhabdoid tumor  (ISO)
autistic disorder  (ISO)
autosomal hemophilia A  (ISO)
bone osteosarcoma  (ISO)
brachydactyly  (ISO)
Craniofacial Abnormalities  (ISO)
cryptorchidism  (ISO)
Developmental Disabilities  (ISO)
Developmental Disease  (ISO)
disorder of sexual development  (ISO)
Dwarfism  (ISO)
factor VIII deficiency  (ISO)
Gastro-Enteropancreatic Neuroendocrine Tumor  (ISO)
genetic disease  (ISO)
glioblastoma  (ISO)
Growth Disorders  (ISO)
high grade glioma  (ISO)
Huntington's disease  (ISO)
intellectual disability  (ISO)
islet cell tumor  (ISO)
lung adenocarcinoma  (ISO)
Lung Carcinoid Tumors  (ISO)
lung small cell carcinoma  (ISO)
lung squamous cell carcinoma  (ISO)
malignant astrocytoma  (ISO)
melanoma  (ISO)
Menkes disease  (ISO)
microcephaly  (ISO)
Muscle Hypotonia  (ISO)
myelodysplastic syndrome  (ISO)
Nervous System Malformations  (ISO)
neuroblastoma  (ISO)
Neurodevelopmental Disorders  (ISO)
neuroendocrine tumor  (ISO)
osteosarcoma  (ISO)
pancreatic cancer  (ISO)
penile disease  (ISO)
sarcoma  (ISO)
schizophrenia  (ISO)
spermatogenic failure 57  (ISO)
stomach cancer  (ISO)
syndromic X-linked intellectual disability Lubs type  (ISO)
thoracic disease  (ISO)
X-linked immunodeficiency with magnesium defect, Epstein-Barr virus infection, and neoplasia  (ISO)
X-Linked Intellectual Developmental Disorders  (ISO)
X-linked mental retardation-hypotonic facies syndrome-1  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Atrx
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_004955557947,167 - 1,252,724 (-)EnsemblChiLan1.0
ChiLan1.0NW_004955557947,368 - 1,252,701 (-)NCBIChiLan1.0ChiLan1.0
ATRX
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X77,504,880 - 77,786,216 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX77,504,880 - 77,786,233 (-)EnsemblGRCh38hg38GRCh38
GRCh37X76,760,358 - 77,041,702 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36X76,647,012 - 76,928,375 (-)NCBINCBI36Build 36hg18NCBI36
CeleraX77,001,253 - 77,282,613 (-)NCBICelera
Cytogenetic MapXq21.1NCBI
HuRefX70,349,443 - 70,629,029 (-)NCBIHuRef
CHM1_1X76,653,073 - 76,934,420 (-)NCBICHM1_1
T2T-CHM13v2.0X75,942,420 - 76,223,770 (-)NCBIT2T-CHM13v2.0
Atrx
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X104,841,221 - 104,972,978 (-)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX104,841,221 - 104,973,009 (-)EnsemblGRCm39 Ensembl
GRCm38X105,797,615 - 105,929,372 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX105,797,615 - 105,929,403 (-)EnsemblGRCm38mm10GRCm38
MGSCv37X102,992,954 - 103,124,711 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36X102,002,872 - 102,132,061 (-)NCBIMGSCv36mm8
CeleraX92,651,743 - 92,783,324 (-)NCBICelera
Cytogenetic MapXDNCBI
cM MapX47.26NCBI
Atrx
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X74,916,548 - 75,062,880 (-)NCBIGRCr8
mRatBN7.2X70,850,981 - 70,997,330 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX70,850,981 - 70,997,330 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_UtxX72,359,919 - 72,506,253 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X75,860,229 - 76,006,565 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X73,423,392 - 73,569,729 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X76,820,110 - 76,979,155 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX76,820,329 - 76,979,115 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_6.0 EnsemblX76,692,970 - 76,708,878 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0X77,469,497 - 77,515,204 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Rnor_5.0X55,943,493 - 56,101,756 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4X93,903,794 - 94,051,337 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1X94,034,366 - 94,057,029 (-)NCBI
CeleraX72,164,814 - 72,309,854 (-)NCBICelera
Cytogenetic MapXq22NCBI
ATRX
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X77,081,989 - 77,368,610 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X77,085,587 - 77,372,212 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X66,682,968 - 66,969,421 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X76,795,574 - 77,083,486 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX76,795,574 - 77,083,486 (-)Ensemblpanpan1.1panPan2
ATRX
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X59,772,067 - 60,107,016 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX59,774,585 - 60,106,980 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_TashaX50,787,446 - 51,120,278 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0X61,011,471 - 61,270,437 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX61,011,677 - 61,270,443 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X58,719,357 - 59,051,934 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X60,325,606 - 60,661,270 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X59,917,163 - 60,249,816 (-)NCBIUU_Cfam_GSD_1.0
Atrx
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X42,229,198 - 42,451,804 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366832,495,959 - 2,718,620 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366832,496,307 - 2,718,539 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ATRX
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX61,584,848 - 61,872,287 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1X61,584,028 - 61,872,341 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X70,390,618 - 70,509,341 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ATRX
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X66,449,830 - 66,737,220 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX66,448,449 - 66,737,164 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606714,772,636 - 15,066,083 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0


Expression

RNA-SEQ Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005412622 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013508821 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013508822 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013508823 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013508824 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_013508825 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AGCD01073270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073272 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073275 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073276 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073277 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073278 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073279 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073280 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073281 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073282 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AGCD01073283 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  GBDK01278909 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Ensembl Acc Id: ENSCLAT00000000273   ⟹   ENSCLAP00000000246
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_004955557947,167 - 1,252,724 (-)Ensembl
Ensembl Acc Id: ENSCLAT00000000274   ⟹   ENSCLAP00000000247
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_004955557947,167 - 1,252,724 (-)Ensembl
Ensembl Acc Id: ENSCLAT00000000275   ⟹   ENSCLAP00000000248
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_004955557950,487 - 1,182,778 (-)Ensembl
RefSeq Acc Id: XM_005412622   ⟹   XP_005412679
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_004955557947,368 - 1,252,701 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013508821   ⟹   XP_013364275
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_004955557947,368 - 1,252,035 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013508822   ⟹   XP_013364276
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_004955557947,368 - 1,252,035 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013508823   ⟹   XP_013364277
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_004955557947,368 - 1,252,035 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013508824   ⟹   XP_013364278
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_004955557947,368 - 1,252,035 (-)NCBI
Sequence:
RefSeq Acc Id: XM_013508825   ⟹   XP_013364279
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_004955557947,368 - 1,252,701 (-)NCBI
Sequence:
RefSeq Acc Id: XP_005412679   ⟸   XM_005412622
- Peptide Label: isoform X5
- UniProtKB: A0A8C2UFP4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013364279   ⟸   XM_013508825
- Peptide Label: isoform X6
- UniProtKB: A0A8C2UFP4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013364278   ⟸   XM_013508824
- Peptide Label: isoform X4
- UniProtKB: A0A8C2UHZ0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013364277   ⟸   XM_013508823
- Peptide Label: isoform X3
- UniProtKB: A0A8C2UHZ0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013364276   ⟸   XM_013508822
- Peptide Label: isoform X2
- UniProtKB: A0A8C2UFP4 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_013364275   ⟸   XM_013508821
- Peptide Label: isoform X1
- UniProtKB: A0A8C2UFP4 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000000246   ⟸   ENSCLAT00000000273
Ensembl Acc Id: ENSCLAP00000000247   ⟸   ENSCLAT00000000274
Ensembl Acc Id: ENSCLAP00000000248   ⟸   ENSCLAT00000000275
Protein Domains
Helicase ATP-binding   Helicase C-terminal   PHD-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000000229 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000000273 ENTREZGENE
  ENSCLAT00000000273.1 UniProtKB/TrEMBL
  ENSCLAT00000000274.1 UniProtKB/TrEMBL
  ENSCLAT00000000275.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.40.10 UniProtKB/TrEMBL
  3.40.50.10810 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
  SWI2/SNF2 ATPases, N-terminal domain UniProtKB/TrEMBL
InterPro ADD UniProtKB/TrEMBL
  ADD_ATRX UniProtKB/TrEMBL
  ATRX_domain-containing UniProtKB/TrEMBL
  Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  SNF2-like_sf UniProtKB/TrEMBL
  SNF2/RAD54-like_C UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
  Znf_FYVE_PHD UniProtKB/TrEMBL
  Znf_RING/FYVE/PHD UniProtKB/TrEMBL
NCBI Gene Atrx ENTREZGENE
PANTHER TRANSCRIPTIONAL REGULATOR ATRX UniProtKB/TrEMBL
  TRANSCRIPTIONAL REGULATOR ATRX UniProtKB/TrEMBL
Pfam ADD_ATRX UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  SNF2-rel_dom UniProtKB/TrEMBL
PROSITE ADD UniProtKB/TrEMBL
  HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
Superfamily-SCOP SSF52540 UniProtKB/TrEMBL
  SSF57903 UniProtKB/TrEMBL
UniProt A0A8C2UFP4 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2UHZ0 ENTREZGENE, UniProtKB/TrEMBL
  A0A8C2YI27_CHILA UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2019-01-22 Atrx  ATRX chromatin remodeler    ATRX, chromatin remodeler  Symbol and/or name change 5135510 APPROVED
2016-08-03 Atrx  ATRX, chromatin remodeler    alpha thalassemia/mental retardation syndrome X-linked  Symbol and/or name change 5135510 APPROVED