ARID3B (AT-rich interaction domain 3B) - Rat Genome Database

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Gene: ARID3B (AT-rich interaction domain 3B) Sus scrofa
Analyze
Symbol: ARID3B
Name: AT-rich interaction domain 3B
RGD ID: 14027338
Description: ENCODES a protein that exhibits DNA binding (inferred); INVOLVED IN positive regulation of transcription by RNA polymerase II (inferred); regulation of transcription by RNA polymerase II (inferred); ASSOCIATED WITH Bardet-Biedl syndrome (ortholog); Bloom syndrome (ortholog); colorectal cancer (ortholog); FOUND IN nucleoplasm (inferred); nucleus (inferred); INTERACTS WITH deoxynivalenol
Type: protein-coding
RefSeq Status: MODEL
Previously known as: AT-rich interactive domain-containing protein 3B
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl758,932,461 - 58,998,711 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1758,932,450 - 58,998,707 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2763,604,350 - 63,659,306 (-)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component
nucleoplasm  (IEA)
nucleus  (IEA)

Molecular Function

References
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
ARID3B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl758,932,461 - 58,998,711 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1758,932,450 - 58,998,707 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2763,604,350 - 63,659,306 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ARID3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381574,541,220 - 74,598,131 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1574,541,206 - 74,598,131 (+)EnsemblGRCh38hg38GRCh38
GRCh371574,833,561 - 74,890,472 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361572,620,601 - 72,677,525 (+)NCBINCBI36Build 36hg18NCBI36
Build 341572,620,636 - 72,677,523NCBI
Celera1551,781,307 - 51,840,407 (+)NCBICelera
Cytogenetic Map15q24.1NCBI
HuRef1551,629,712 - 51,688,633 (+)NCBIHuRef
CHM1_11574,951,997 - 75,008,919 (+)NCBICHM1_1
T2T-CHM13v2.01572,408,943 - 72,468,032 (+)NCBIT2T-CHM13v2.0
Arid3b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39957,697,636 - 57,744,130 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl957,697,636 - 57,744,076 (-)EnsemblGRCm39 Ensembl
GRCm38957,790,353 - 57,836,847 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl957,790,353 - 57,836,793 (-)EnsemblGRCm38mm10GRCm38
MGSCv37957,638,303 - 57,684,291 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36957,588,633 - 57,634,621 (-)NCBIMGSCv36mm8
Celera955,019,699 - 55,065,691 (-)NCBICelera
Cytogenetic Map9BNCBI
cM Map931.56NCBI
Arid3b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8867,089,141 - 67,136,764 (-)NCBIGRCr8
mRatBN7.2858,193,268 - 58,240,901 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl858,193,418 - 58,238,318 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx863,724,445 - 63,769,156 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0862,002,013 - 62,046,715 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0859,866,560 - 59,911,273 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0862,569,601 - 62,616,837 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl862,569,528 - 62,616,828 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0862,346,404 - 62,393,637 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4861,560,831 - 61,606,146 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.1861,581,882 - 61,625,123 (-)NCBI
Celera857,659,216 - 57,704,045 (-)NCBICelera
Cytogenetic Map8q24NCBI
Arid3b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554503,271,387 - 3,319,103 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554503,272,820 - 3,318,820 (-)NCBIChiLan1.0ChiLan1.0
ARID3B
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21663,768,154 - 63,827,344 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11567,931,744 - 67,990,935 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01553,482,870 - 53,542,063 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11573,102,315 - 73,161,788 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1573,104,984 - 73,159,422 (+)Ensemblpanpan1.1panPan2
ARID3B
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.13037,640,673 - 37,694,291 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl3037,640,663 - 37,692,049 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha3037,574,016 - 37,628,038 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.03037,845,795 - 37,899,986 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl3037,845,834 - 37,898,533 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.13037,798,578 - 37,852,598 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.03037,824,147 - 37,878,159 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.03038,079,489 - 38,133,526 (+)NCBIUU_Cfam_GSD_1.0
Arid3b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024408640115,692,084 - 115,737,335 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_00493647133,540,054 - 33,586,826 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_00493647133,540,159 - 33,585,398 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ARID3B
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1268,884,391 - 8,943,803 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl268,882,821 - 8,941,155 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666048132,686,204 - 132,745,477 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Arid3b
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478165,588 - 119,496 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478165,586 - 119,562 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in ARID3B
1104 total Variants

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 hemolymphoid system musculoskeletal system nervous system renal system reproductive system respiratory system
High
Medium 1 2
Low 10 4 3 4 2 20 2 3 3
Below cutoff 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000002134   ⟹   ENSSSCP00000002084
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl758,944,416 - 58,998,711 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000082441   ⟹   ENSSSCP00000060415
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl758,929,453 - 58,998,657 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000095398   ⟹   ENSSSCP00000076302
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl758,932,461 - 58,997,963 (-)Ensembl
RefSeq Acc Id: XM_021099056   ⟹   XP_020954715
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1758,932,450 - 58,998,707 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_020954715 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSSCP00000002084.4
  ENSSSCP00000076302
  ENSSSCP00000076302.1
  ENSSSCP00025034436.1
  ENSSSCP00045022732.1
  ENSSSCP00070017223.1
Reference Protein Sequences
RefSeq Acc Id: XP_020954715   ⟸   XM_021099056
- UniProtKB: A0A4X1TPX5 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000002084   ⟸   ENSSSCT00000002134
RefSeq Acc Id: ENSSSCP00000060415   ⟸   ENSSSCT00000082441
RefSeq Acc Id: ENSSSCP00000076302   ⟸   ENSSSCT00000095398
Protein Domains
ARID   REKLES


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000001905 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00025057851 UniProtKB/TrEMBL
  ENSSSCG00045019209 UniProtKB/TrEMBL
  ENSSSCG00070010728 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000002134.5 UniProtKB/TrEMBL
  ENSSSCT00000095398 ENTREZGENE
  ENSSSCT00000095398.1 UniProtKB/TrEMBL
  ENSSSCT00025079319.1 UniProtKB/TrEMBL
  ENSSSCT00045032807.1 UniProtKB/TrEMBL
  ENSSSCT00070020826.1 UniProtKB/TrEMBL
Gene3D-CATH 1.10.150.60 UniProtKB/TrEMBL
InterPro ARI3A/B/C UniProtKB/TrEMBL
  ARID_dom UniProtKB/TrEMBL
  ARID_dom_sf UniProtKB/TrEMBL
  REKLES_domain UniProtKB/TrEMBL
NCBI Gene ARID3B ENTREZGENE
PANTHER AT-RICH INTERACTIVE DOMAIN-CONTAINING PROTEIN 3B UniProtKB/TrEMBL
  PTHR15348 UniProtKB/TrEMBL
Pfam ARID UniProtKB/TrEMBL
PROSITE ARID UniProtKB/TrEMBL
  REKLES UniProtKB/TrEMBL
SMART ARID UniProtKB/TrEMBL
  BRIGHT UniProtKB/TrEMBL
Superfamily-SCOP SSF46774 UniProtKB/TrEMBL
UniProt A0A4X1TPX5 ENTREZGENE, UniProtKB/TrEMBL
  A0A8W4FAK0_PIG UniProtKB/TrEMBL
  F1SIE5_PIG UniProtKB/TrEMBL
VGNC ID VGNC:85508 ENTREZGENE