Smarca4 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4) - Rat Genome Database

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Gene: Smarca4 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4) Chinchilla lanigera
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Symbol: Smarca4
Name: SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 4
RGD ID: 8776417
Description: ENCODES a protein that exhibits ATP hydrolysis activity (ortholog); ATP-dependent activity, acting on DNA (ortholog); chromatin binding (ortholog); INVOLVED IN aorta development (ortholog); aortic smooth muscle cell differentiation (ortholog); blastocyst growth (ortholog); PARTICIPATES IN altered SWI/SNF family mediated chromatin remodeling pathway; cortisol signaling pathway; histone modification pathway; ASSOCIATED WITH adrenocortical carcinoma (ortholog); amyotrophic lateral sclerosis (ortholog); atrial heart septal defect (ortholog); FOUND IN chromatin (ortholog); euchromatin (ortholog); fibrillar center (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: transcription activator BRG1
RGD Orthologs
Human
Mouse
Rat
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554952,021,566 - 2,105,397 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554952,021,671 - 2,105,155 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
aorta development  (ISO)
aortic smooth muscle cell differentiation  (ISO)
blastocyst growth  (ISO)
blastocyst hatching  (ISO)
blood vessel development  (ISO)
cell morphogenesis  (ISO)
chromatin remodeling  (ISO)
coronary vasculature development  (ISO)
definitive erythrocyte differentiation  (ISO)
DNA methylation on cytosine within a CG sequence  (ISO)
DNA methylation-dependent heterochromatin formation  (ISO)
embryonic hindlimb morphogenesis  (ISO)
embryonic organ morphogenesis  (ISO)
epidermis morphogenesis  (ISO)
extracellular matrix organization  (ISO)
forebrain development  (ISO)
gene expression  (ISO)
glial cell fate determination  (ISO)
heart development  (ISO)
heart trabecula formation  (ISO)
hindbrain development  (ISO)
histone H3 acetylation  (ISO)
in utero embryonic development  (ISO)
keratinocyte differentiation  (ISO)
lens fiber cell development  (ISO)
liver development  (ISO)
negative regulation of androgen receptor signaling pathway  (ISO)
negative regulation of apoptotic process  (ISO)
negative regulation of cell growth  (ISO)
negative regulation of DNA-templated transcription  (ISO)
negative regulation of transcription by RNA polymerase II  (ISO)
nervous system development  (ISO)
neural retina development  (ISO)
neurogenesis  (ISO)
nucleosome disassembly  (ISO)
outflow tract morphogenesis  (ISO)
pharyngeal arch artery morphogenesis  (ISO)
positive regulation by host of viral transcription  (ISO)
positive regulation of cell differentiation  (ISO)
positive regulation of cell population proliferation  (ISO)
positive regulation of DNA binding  (ISO)
positive regulation of DNA-binding transcription factor activity  (ISO)
positive regulation of DNA-templated transcription  (ISO)
positive regulation of glucose mediated signaling pathway  (ISO)
positive regulation of miRNA transcription  (ISO)
positive regulation of transcription by RNA polymerase II  (ISO)
positive regulation of transcription of nucleolar large rRNA by RNA polymerase I  (ISO)
positive regulation of Wnt signaling pathway  (ISO)
primitive erythrocyte differentiation  (ISO)
regulation of cell migration  (ISO)
spermatid development  (ISO)
stem cell population maintenance  (ISO)
transcription by RNA polymerase II  (ISO)
vasculogenesis  (ISO)
ventricular septum development  (ISO)

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISS annotations to Chinchilla, Squirrel, Bonobo and/or Dog genes from Human gene annotations
2. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline

Genomics

Comparative Map Data
Smarca4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554952,021,566 - 2,105,397 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554952,021,671 - 2,105,155 (+)NCBIChiLan1.0ChiLan1.0
SMARCA4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381910,961,030 - 11,062,273 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl1910,960,932 - 11,079,426 (+)EnsemblGRCh38hg38GRCh38
GRCh371911,071,706 - 11,172,949 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361910,932,606 - 11,033,953 (+)NCBINCBI36hg18NCBI36
Build 341910,932,605 - 11,033,953NCBI
Celera1910,966,440 - 11,067,798 (+)NCBI
Cytogenetic Map19p13.2NCBI
HuRef1910,649,456 - 10,749,943 (+)NCBIHuRef
CHM1_11911,072,949 - 11,174,225 (+)NCBICHM1_1
T2T-CHM13v2.01911,088,037 - 11,189,277 (+)NCBI
Smarca4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39921,527,377 - 21,615,526 (+)NCBIGRCm39mm39
GRCm39 Ensembl921,527,465 - 21,615,526 (+)Ensembl
GRCm38921,616,106 - 21,704,230 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl921,616,169 - 21,704,230 (+)EnsemblGRCm38mm10GRCm38
MGSCv37921,420,613 - 21,508,674 (+)NCBIGRCm37mm9NCBIm37
MGSCv36921,366,571 - 21,453,769 (+)NCBImm8
Celera918,885,790 - 18,973,851 (+)NCBICelera
Cytogenetic Map9A3NCBI
cM Map97.84NCBI
Smarca4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.2820,167,717 - 20,258,975 (+)NCBImRatBN7.2
mRatBN7.2 Ensembl820,167,717 - 20,258,975 (+)Ensembl
Rnor_6.0822,648,323 - 22,739,468 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl822,648,323 - 22,739,468 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0822,702,277 - 22,793,519 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4820,720,915 - 20,812,157 (+)NCBIRGSC3.4rn4RGSC3.4
RGSC_v3.1820,787,909 - 20,796,297 (+)NCBI
Celera821,558,796 - 21,650,002 (+)NCBICelera
Cytogenetic Map8q13NCBI
SMARCA4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.11911,250,006 - 11,334,952 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1911,250,006 - 11,334,952 (+)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v01910,515,216 - 10,616,155 (+)NCBIMhudiblu_PPA_v0panPan3
SMARCA4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12050,175,489 - 50,268,865 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2050,175,687 - 50,268,836 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2050,049,076 - 50,142,476 (-)NCBI
ROS_Cfam_1.02050,696,689 - 50,790,220 (-)NCBI
ROS_Cfam_1.0 Ensembl2050,696,700 - 50,790,215 (-)Ensembl
UMICH_Zoey_3.12049,906,864 - 50,000,228 (-)NCBI
UNSW_CanFamBas_1.02050,333,903 - 50,427,442 (-)NCBI
UU_Cfam_GSD_1.02050,576,222 - 50,669,723 (-)NCBI
Smarca4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118209,107,992 - 209,201,474 (-)NCBI
SpeTri2.0NW_0049366591,152,846 - 1,246,718 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMARCA4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl269,662,238 - 69,810,295 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1269,717,175 - 69,810,301 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2270,151,823 - 70,182,978 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SMARCA4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.169,943,162 - 10,044,476 (+)NCBIChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660749,892,049 - 9,994,184 (-)NCBIVero_WHO_p1.0
Smarca4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248282,893,096 - 2,985,968 (+)EnsemblHetGla_female_1.0hetGla2
HetGla 1.0NW_0046248282,893,075 - 2,985,968 (+)NCBIHetGla_female_1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSCLAT00000017561   ⟹   ENSCLAP00000017391
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554952,021,566 - 2,105,397 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000017562   ⟹   ENSCLAP00000017392
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554952,043,786 - 2,104,797 (+)Ensembl
RefSeq Acc Id: ENSCLAT00000017563   ⟹   ENSCLAP00000017393
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049554952,043,786 - 2,104,797 (+)Ensembl
RefSeq Acc Id: XM_013505175   ⟹   XP_013360629
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554952,021,671 - 2,105,155 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013505176   ⟹   XP_013360630
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554952,021,671 - 2,105,155 (+)NCBI
Sequence:
RefSeq Acc Id: XM_013505177   ⟹   XP_013360631
RefSeq Status:
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049554952,021,671 - 2,105,155 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_013360629 (Get FASTA)   NCBI Sequence Viewer  
  XP_013360630 (Get FASTA)   NCBI Sequence Viewer  
  XP_013360631 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: XP_013360630   ⟸   XM_013505176
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013360629   ⟸   XM_013505175
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_013360631   ⟸   XM_013505177
- Peptide Label: isoform X2
- Sequence:
RefSeq Acc Id: ENSCLAP00000017393   ⟸   ENSCLAT00000017563
RefSeq Acc Id: ENSCLAP00000017391   ⟸   ENSCLAT00000017561
RefSeq Acc Id: ENSCLAP00000017392   ⟸   ENSCLAT00000017562
Protein Domains
Bromo   Helicase ATP-binding   Helicase C-terminal   HSA   QLQ


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000011946 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSCLAP00000017391 ENTREZGENE, UniProtKB/TrEMBL
  ENSCLAP00000017392 UniProtKB/TrEMBL
  ENSCLAP00000017393 UniProtKB/TrEMBL
Ensembl Transcript ENSCLAT00000017561 ENTREZGENE, UniProtKB/TrEMBL
  ENSCLAT00000017562 UniProtKB/TrEMBL
  ENSCLAT00000017563 UniProtKB/TrEMBL
Gene3D-CATH 1.20.920.10 UniProtKB/TrEMBL
  3.40.5.120 UniProtKB/TrEMBL
  3.40.50.10810 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
InterPro BRG1 UniProtKB/TrEMBL
  BRK_domain UniProtKB/TrEMBL
  BRK_sf UniProtKB/TrEMBL
  Bromodomain UniProtKB/TrEMBL
  Bromodomain-like_sf UniProtKB/TrEMBL
  Bromodomain_CS UniProtKB/TrEMBL
  Gln-Leu-Gln_QLQ UniProtKB/TrEMBL
  Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  HSA_dom UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  SnAC UniProtKB/TrEMBL
  SNF2-like_sf UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
NCBI Gene Smarca4 ENTREZGENE
PANTHER PTHR10799:SF76 UniProtKB/TrEMBL
Pfam BRK UniProtKB/TrEMBL
  Bromodomain UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  HSA UniProtKB/TrEMBL
  QLQ UniProtKB/TrEMBL
  SnAC UniProtKB/TrEMBL
  SNF2-rel_dom UniProtKB/TrEMBL
PRINTS BROMODOMAIN UniProtKB/TrEMBL
PROSITE BROMODOMAIN_1 UniProtKB/TrEMBL
  BROMODOMAIN_2 UniProtKB/TrEMBL
  HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
  HSA UniProtKB/TrEMBL
  QLQ UniProtKB/TrEMBL
SMART BRK UniProtKB/TrEMBL
  BROMO UniProtKB/TrEMBL
  DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
  HSA UniProtKB/TrEMBL
  QLQ UniProtKB/TrEMBL
  SnAC UniProtKB/TrEMBL
Superfamily-SCOP SSF160481 UniProtKB/TrEMBL
  SSF47370 UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt A0A8C2VLE2_CHILA UniProtKB/TrEMBL
  A0A8C2YR81_CHILA UniProtKB/TrEMBL
  A0A8C2YR88_CHILA UniProtKB/TrEMBL