Smarca5 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5) - Rat Genome Database

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Gene: Smarca5 (SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5) Ictidomys tridecemlineatus
Analyze
Symbol: Smarca5
Name: SWI/SNF related, matrix associated, actin dependent regulator of chromatin, subfamily a, member 5
RGD ID: 12493929
Description: ENCODES a protein that exhibits histone binding (ortholog); INVOLVED IN cellular response to leukemia inhibitory factor (ortholog); chromatin organization (ortholog); chromatin remodeling (ortholog); PARTICIPATES IN ISWI family mediated chromatin remodeling pathway; ASSOCIATED WITH Developmental Disabilities (ortholog); Dwarfism (ortholog); genetic disease (ortholog); FOUND IN ACF complex (ortholog); B-WICH complex (ortholog); pericentric heterochromatin (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: SWI/SNF-related matrix-associated actin-dependent regulator of chromatin subfamily A member 5
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530147,420,476 - 47,452,913 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365354,856,672 - 4,890,225 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365354,857,816 - 4,890,266 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
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

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
Smarca5
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440530147,420,476 - 47,452,913 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365354,856,672 - 4,890,225 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365354,857,816 - 4,890,266 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SMARCA5
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh384143,513,702 - 143,557,486 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl4143,513,702 - 143,557,486 (+)EnsemblGRCh38hg38GRCh38
GRCh374144,434,855 - 144,478,639 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 364144,654,066 - 144,694,017 (+)NCBINCBI36Build 36hg18NCBI36
Build 344144,792,220 - 144,832,171NCBI
Celera4141,764,634 - 141,804,574 (+)NCBICelera
Cytogenetic Map4q31.21NCBI
HuRef4140,164,707 - 140,208,721 (+)NCBIHuRef
CHM1_14144,411,831 - 144,455,839 (+)NCBICHM1_1
T2T-CHM13v2.04146,830,915 - 146,874,681 (+)NCBIT2T-CHM13v2.0
Smarca5
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39881,426,572 - 81,466,088 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl881,425,136 - 81,466,126 (-)EnsemblGRCm39 Ensembl
GRCm38880,699,943 - 80,739,459 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl880,698,507 - 80,739,497 (-)EnsemblGRCm38mm10GRCm38
MGSCv37883,223,842 - 83,263,358 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36883,595,689 - 83,635,205 (-)NCBIMGSCv36mm8
Celera884,973,840 - 85,010,486 (-)NCBICelera
Cytogenetic Map8C2NCBI
cM Map838.41NCBI
Smarca5
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81944,172,465 - 44,208,967 (+)NCBIGRCr8
mRatBN7.21927,271,918 - 27,304,594 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1927,271,148 - 27,304,594 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1934,130,292 - 34,162,927 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01934,784,348 - 34,816,983 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01937,004,248 - 37,036,904 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01930,936,703 - 30,969,454 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1930,936,703 - 30,969,454 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01941,840,174 - 41,873,900 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41929,122,301 - 29,155,293 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11929,126,640 - 29,160,112 (+)NCBI
Celera1926,788,347 - 26,821,018 (+)NCBICelera
Cytogenetic Map19q11NCBI
Smarca5
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495547112,203,318 - 12,237,333 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495547112,206,462 - 12,240,219 (-)NCBIChiLan1.0ChiLan1.0
SMARCA5
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v23141,384,818 - 141,431,020 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan14141,772,592 - 141,817,851 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v04135,874,888 - 135,917,096 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.14147,174,145 - 147,214,809 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl4147,174,060 - 147,214,809 (+)Ensemblpanpan1.1panPan2
SMARCA5
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11542,731,147 - 42,771,577 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1542,731,426 - 42,770,624 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1543,114,109 - 43,154,330 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01543,391,125 - 43,431,354 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1543,391,132 - 43,431,358 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11542,668,391 - 42,708,501 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01542,752,138 - 42,792,336 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01543,023,307 - 43,063,521 (+)NCBIUU_Cfam_GSD_1.0
SMARCA5
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl884,184,576 - 84,224,871 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1884,184,572 - 84,224,943 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2889,339,602 - 89,379,481 (-)NCBISscrofa10.2Sscrofa10.2susScr3
SMARCA5
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1790,366,359 - 90,406,707 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl790,370,305 - 90,410,137 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603769,966,455 - 70,007,230 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Smarca5
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248483,569,744 - 3,611,104 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence

Nucleotide Sequences
RefSeq Transcripts XM_005327556 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JAESOR010000360 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENSSTOT00000010692   ⟹   ENSSTOP00000009598
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365354,856,672 - 4,890,225 (-)Ensembl
RefSeq Acc Id: ENSSTOT00000039142   ⟹   ENSSTOP00000026905
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049365354,856,672 - 4,889,788 (-)Ensembl
RefSeq Acc Id: XM_005327556   ⟹   XP_005327613
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_02440530147,420,476 - 47,452,913 (-)NCBI
SpeTri2.0NW_0049365354,857,816 - 4,890,266 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_005327613 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000009598.3
  ENSSTOP00000026905.1
GenBank Protein KAG3276143 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_005327613   ⟸   XM_005327556
- UniProtKB: I3MFZ2 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSTOP00000026905   ⟸   ENSSTOT00000039142
RefSeq Acc Id: ENSSTOP00000009598   ⟸   ENSSTOT00000010692
Protein Domains
Helicase ATP-binding   Helicase C-terminal   SANT


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000010683 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000010692.3 UniProtKB/TrEMBL
  ENSSTOT00000039142.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.1040.30 UniProtKB/TrEMBL
  3.40.50.10810 UniProtKB/TrEMBL
  3.40.50.300 UniProtKB/TrEMBL
  Homeodomain-like UniProtKB/TrEMBL
  iswi atpase UniProtKB/TrEMBL
InterPro Helicase_ATP-bd UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  Homeobox-like_sf UniProtKB/TrEMBL
  ISWI_HAND-dom UniProtKB/TrEMBL
  ISWI_HAND-dom_sf UniProtKB/TrEMBL
  P-loop_NTPase UniProtKB/TrEMBL
  SANT/Myb UniProtKB/TrEMBL
  SANT_dom UniProtKB/TrEMBL
  SLIDE UniProtKB/TrEMBL
  SNF2-like_sf UniProtKB/TrEMBL
  SNF2/RAD54-like_C UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
NCBI Gene Smarca5 ENTREZGENE
PANTHER CHROMODOMAIN-HELICASE-DNA-BINDING PROTEIN 3-RELATED-RELATED UniProtKB/TrEMBL
  ISW-1 UniProtKB/TrEMBL
Pfam HAND UniProtKB/TrEMBL
  Helicase_C UniProtKB/TrEMBL
  SLIDE UniProtKB/TrEMBL
  SNF2_N UniProtKB/TrEMBL
PROSITE HELICASE_ATP_BIND_1 UniProtKB/TrEMBL
  HELICASE_CTER UniProtKB/TrEMBL
  SANT UniProtKB/TrEMBL
SMART DEXDc UniProtKB/TrEMBL
  HELICc UniProtKB/TrEMBL
  SANT UniProtKB/TrEMBL
Superfamily-SCOP SSF101224 UniProtKB/TrEMBL
  SSF46689 UniProtKB/TrEMBL
  SSF52540 UniProtKB/TrEMBL
UniProt A0A287CZY7_ICTTR UniProtKB/TrEMBL
  I3MFZ2 ENTREZGENE, UniProtKB/TrEMBL