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

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Gene: ARID3B (AT-rich interaction domain 3B) Homo sapiens
Analyze
Symbol: ARID3B
Name: AT-rich interaction domain 3B
RGD ID: 1314897
HGNC Page HGNC:14350
Description: Predicted to enable DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Located in nucleoplasm.
Type: protein-coding
RefSeq Status: REVIEWED
Previously known as: ARID domain-containing protein 3B; AT rich interactive domain 3B (BRIGHT- like); AT rich interactive domain 3B (BRIGHT-like); AT-rich interactive domain-containing protein 3B; BDP; bright and dead ringer protein; bright-like protein; DRIL2
RGD Orthologs
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Related Pseudogenes: ARID3BP1  
Allele / Splice: See ClinVar data
Latest Assembly: GRCh38 - Human Genome Assembly GRCh38
Position:
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
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

Biological Process

Cellular Component
nucleoplasm  (IDA)
nucleus  (IBA,IEA,NAS)

Molecular Function
DNA binding  (IBA,IEA)
protein binding  (IPI)

Phenotype Annotations     Click to see Annotation Detail View

Human Phenotype
Schizophrenia  (IAGP)
References

References - curated
# Reference Title Reference Citation
1. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
2. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:10446990   PMID:10838570   PMID:12477932   PMID:17643375   PMID:19430483   PMID:19881956   PMID:20211142   PMID:20379614   PMID:21044950   PMID:21307092   PMID:21832049   PMID:21873635  
PMID:22307404   PMID:22751132   PMID:22860069   PMID:23667531   PMID:24704276   PMID:24981860   PMID:25120063   PMID:25327563   PMID:25609649   PMID:26186194   PMID:26217791   PMID:26519881  
PMID:26687479   PMID:26949251   PMID:27025927   PMID:27173435   PMID:27512077   PMID:27634302   PMID:28514442   PMID:28611094   PMID:28794006   PMID:29395067   PMID:29511261   PMID:29568061  
PMID:30021884   PMID:30415952   PMID:30585729   PMID:30890647   PMID:31182584   PMID:31239290   PMID:31415216   PMID:31501420   PMID:32061921   PMID:32203420   PMID:32483441   PMID:32538781  
PMID:32807901   PMID:33142733   PMID:33640491   PMID:33649863   PMID:33722704   PMID:33961781   PMID:34079125   PMID:34189442   PMID:34672954   PMID:34795231   PMID:35140242   PMID:35182466  
PMID:35241646   PMID:35271311   PMID:35439318   PMID:35844135   PMID:35944360   PMID:36089195   PMID:36129980   PMID:36373674   PMID:37071664   PMID:37207277   PMID:37689310   PMID:37827155  
PMID:38280479  


Genomics

Comparative Map Data
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
(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
(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
25 total Variants

Clinical Variants
Name Type Condition(s) Position(s) Clinical significance
GRCh38/hg38 15q24.1-24.2(chr15:72671629-75662276)x1 copy number loss See cases [RCV000051128] Chr15:72671629..75662276 [GRCh38]
Chr15:72963970..75954617 [GRCh37]
Chr15:70751023..73741672 [NCBI36]
Chr15:15q24.1-24.2		 pathogenic
GRCh38/hg38 15q24.1-24.2(chr15:72629028-75242989)x3 copy number gain See cases [RCV000051821] Chr15:72629028..75242989 [GRCh38]
Chr15:72921369..75535330 [GRCh37]
Chr15:70708423..73322383 [NCBI36]
Chr15:15q24.1-24.2		 pathogenic
GRCh38/hg38 15q23-24.2(chr15:70788624-76057736)x1 copy number loss Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053219]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053219]|See cases [RCV000053219] Chr15:70788624..76057736 [GRCh38]
Chr15:71080963..76350077 [GRCh37]
Chr15:68868017..74137132 [NCBI36]
Chr15:15q23-24.2		 pathogenic
GRCh38/hg38 15q24.1-24.2(chr15:74106871-75727625)x1 copy number loss Developmental Delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053220]|Developmental delay and additional significant developmental and morphological phenotypes referred for genetic testing [RCV000053220]|See cases [RCV000053220] Chr15:74106871..75727625 [GRCh38]
Chr15:74399212..76019966 [GRCh37]
Chr15:72186265..73807021 [NCBI36]
Chr15:15q24.1-24.2		 pathogenic
NM_006465.2(ARID3B):c.697+33G>A single nucleotide variant Malignant melanoma [RCV000070890] Chr15:74573237 [GRCh38]
Chr15:74865578 [GRCh37]
Chr15:72652631 [NCBI36]
Chr15:15q24.1		 not provided
GRCh38/hg38 15q24.1-24.2(chr15:72671629-75199803)x1 copy number loss See cases [RCV000137347] Chr15:72671629..75199803 [GRCh38]
Chr15:72963970..75492144 [GRCh37]
Chr15:70751023..73279197 [NCBI36]
Chr15:15q24.1-24.2		 likely pathogenic|likely benign
GRCh38/hg38 15q24.1(chr15:74489587-74548113)x3 copy number gain See cases [RCV000141142] Chr15:74489587..74548113 [GRCh38]
Chr15:74781928..74840454 [GRCh37]
Chr15:72568981..72627507 [NCBI36]
Chr15:15q24.1		 likely benign
GRCh38/hg38 15q23-25.1(chr15:70025300-78705993)x1 copy number loss See cases [RCV000141666] Chr15:70025300..78705993 [GRCh38]
Chr15:70317639..78998335 [GRCh37]
Chr15:68104693..76785390 [NCBI36]
Chr15:15q23-25.1		 pathogenic
GRCh38/hg38 15q24.1-24.2(chr15:72685231-75727625)x1 copy number loss See cases [RCV000141573] Chr15:72685231..75727625 [GRCh38]
Chr15:72977572..76019966 [GRCh37]
Chr15:70764625..73807021 [NCBI36]
Chr15:15q24.1-24.2		 pathogenic
GRCh38/hg38 15q22.2-26.3(chr15:59828460-101920998)x3 copy number gain See cases [RCV000142915] Chr15:59828460..101920998 [GRCh38]
Chr15:60120659..102461201 [GRCh37]
Chr15:57907951..100278724 [NCBI36]
Chr15:15q22.2-26.3		 pathogenic
GRCh38/hg38 15q23-26.3(chr15:72154949-101920998)x3 copy number gain See cases [RCV000143019] Chr15:72154949..101920998 [GRCh38]
Chr15:72447290..102461201 [GRCh37]
Chr15:70234344..100278724 [NCBI36]
Chr15:15q23-26.3		 pathogenic
GRCh38/hg38 15q24.1-24.2(chr15:72671629-75242989)x1 copy number loss See cases [RCV000142748] Chr15:72671629..75242989 [GRCh38]
Chr15:72963970..75535330 [GRCh37]
Chr15:70751023..73322383 [NCBI36]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72998989-76069787)x3 copy number gain See cases [RCV000240066] Chr15:72998989..76069787 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72958539-75569605)x1 copy number loss See cases [RCV000240271] Chr15:72958539..75569605 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q24.1-24.3(chr15:74368270-78122737)x3 copy number gain See cases [RCV000240526] Chr15:74368270..78122737 [GRCh37]
Chr15:15q24.1-24.3		 uncertain significance
GRCh37/hg19 15q22.31-26.3(chr15:64637227-102509910)x3 copy number gain See cases [RCV000240602] Chr15:64637227..102509910 [GRCh37]
Chr15:15q22.31-26.3		 pathogenic
GRCh37/hg19 15q22.1-26.3(chr15:59297293-102480888)x3 copy number gain not provided [RCV000415836] Chr15:59297293..102480888 [GRCh37]
Chr15:15q22.1-26.3		 likely pathogenic
GRCh37/hg19 15q15.1-26.3(chr15:41745084-102354798)x4 copy number gain See cases [RCV000447123] Chr15:41745084..102354798 [GRCh37]
Chr15:15q15.1-26.3		 pathogenic
GRCh37/hg19 15q11.2-26.3(chr15:20733395-102511616)x4 copy number gain See cases [RCV000447765] Chr15:20733395..102511616 [GRCh37]
Chr15:15q11.2-26.3		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72958539-76063285)x1 copy number loss not provided [RCV000509167] Chr15:72958539..76063285 [GRCh37]
Chr15:15q24.1-24.2		 not provided
GRCh37/hg19 15q11.2-26.3(chr15:22770422-102429112)x3 copy number gain See cases [RCV000510717] Chr15:22770422..102429112 [GRCh37]
Chr15:15q11.2-26.3		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72943184-75567198)x1 copy number loss See cases [RCV000510609] Chr15:72943184..75567198 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q11.2-26.3(chr15:22770422-102429112) copy number gain See cases [RCV000512019] Chr15:22770422..102429112 [GRCh37]
Chr15:15q11.2-26.3		 pathogenic
NM_006465.4(ARID3B):c.1414G>A (p.Gly472Ser) single nucleotide variant not specified [RCV004319260] Chr15:74591808 [GRCh38]
Chr15:74884149 [GRCh37]
Chr15:15q24.1		 uncertain significance
Single allele duplication not provided [RCV000677926] Chr15:31115047..102354857 [GRCh37]
Chr15:15q13.2-26.3		 pathogenic
Single allele deletion not provided [RCV000677994] Chr15:72958539..75569605 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72943184-76072324)x1 copy number loss not provided [RCV000683704] Chr15:72943184..76072324 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q23-26.3(chr15:71329220-102270758)x3 copy number gain not provided [RCV000683703] Chr15:71329220..102270758 [GRCh37]
Chr15:15q23-26.3		 pathogenic
Single allele duplication Schizophrenia [RCV000754166] Chr15:72640623..75277317 [GRCh38]
Chr15:15q24.1-24.2		 likely pathogenic
Single allele duplication Schizophrenia [RCV000754167] Chr15:74071509..77878298 [GRCh38]
Chr15:15q24.1-24.3		 likely pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72965159-75513545)x1 copy number loss not provided [RCV000751338] Chr15:72965159..75513545 [GRCh37]
Chr15:15q24.1-24.2		 uncertain significance
GRCh37/hg19 15q11.1-26.3(chr15:20016811-102493540)x3 copy number gain not provided [RCV000751155] Chr15:20016811..102493540 [GRCh37]
Chr15:15q11.1-26.3		 pathogenic
GRCh37/hg19 15q11.1-26.3(chr15:20071673-102461162)x3 copy number gain not provided [RCV000751156] Chr15:20071673..102461162 [GRCh37]
Chr15:15q11.1-26.3		 pathogenic
NM_006465.4(ARID3B):c.1527G>A (p.Leu509=) single nucleotide variant not provided [RCV000882469] Chr15:74595618 [GRCh38]
Chr15:74887959 [GRCh37]
Chr15:15q24.1		 benign
GRCh37/hg19 15q24.1-24.2(chr15:72926922-75544524)x1 copy number loss not provided [RCV000848080] Chr15:72926922..75544524 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72963271-76064900)x3 copy number gain not provided [RCV000848212] Chr15:72963271..76064900 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72943184-75544524)x1 copy number loss not provided [RCV000849229] Chr15:72943184..75544524 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72943184-75567198)x1 copy number loss not provided [RCV001006709] Chr15:72943184..75567198 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
NM_006465.4(ARID3B):c.789G>A (p.Val263=) single nucleotide variant not provided [RCV000963717] Chr15:74589911 [GRCh38]
Chr15:74882252 [GRCh37]
Chr15:15q24.1		 benign
NM_006465.4(ARID3B):c.712C>A (p.Arg238=) single nucleotide variant not provided [RCV000957941] Chr15:74589834 [GRCh38]
Chr15:74882175 [GRCh37]
Chr15:15q24.1		 benign
NC_000015.9:g.(?_32964879)_(91358519_?)dup duplication Bloom syndrome [RCV001343104]|Familial colorectal cancer [RCV001325176] Chr15:32964879..91358519 [GRCh37]
Chr15:15q13.3-26.1		 uncertain significance
GRCh37/hg19 15q24.1-24.2(chr15:74398162-76054094)x1 copy number loss not provided [RCV001259708] Chr15:74398162..76054094 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
NC_000015.9:g.(?_72978569)_(75722716_?)del deletion not provided [RCV001863697] Chr15:72978569..75722716 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
NC_000015.9:g.(?_72978569)_(75190071_?)dup duplication Bardet-Biedl syndrome [RCV003122929] Chr15:72978569..75190071 [GRCh37]
Chr15:15q24.1		 uncertain significance
GRCh37/hg19 15q24.1-24.2(chr15:74398068-76054094) copy number loss Hearing impairment [RCV002280767] Chr15:74398068..76054094 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q24.1-24.3(chr15:74353736-77884397)x1 copy number loss not provided [RCV002474580] Chr15:74353736..77884397 [GRCh37]
Chr15:15q24.1-24.3		 pathogenic
NM_006465.4(ARID3B):c.1339C>T (p.Arg447Cys) single nucleotide variant not specified [RCV004153149] Chr15:74591733 [GRCh38]
Chr15:74884074 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.439C>T (p.Pro147Ser) single nucleotide variant not specified [RCV004113727] Chr15:74544375 [GRCh38]
Chr15:74836716 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.13C>G (p.Gln5Glu) single nucleotide variant not specified [RCV004139418] Chr15:74543949 [GRCh38]
Chr15:74836290 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.497C>T (p.Pro166Leu) single nucleotide variant not specified [RCV004094193] Chr15:74544433 [GRCh38]
Chr15:74836774 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.982C>T (p.Arg328Trp) single nucleotide variant not specified [RCV004159291] Chr15:74591251 [GRCh38]
Chr15:74883592 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.1204C>T (p.Arg402Cys) single nucleotide variant not specified [RCV004084917] Chr15:74591598 [GRCh38]
Chr15:74883939 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.1048G>A (p.Gly350Arg) single nucleotide variant not specified [RCV004168029] Chr15:74591317 [GRCh38]
Chr15:74883658 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.1049G>C (p.Gly350Ala) single nucleotide variant not specified [RCV004077084] Chr15:74591318 [GRCh38]
Chr15:74883659 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.568T>C (p.Trp190Arg) single nucleotide variant not specified [RCV004193416] Chr15:74572877 [GRCh38]
Chr15:74865218 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.1472T>G (p.Ile491Ser) single nucleotide variant not specified [RCV004104919] Chr15:74593189 [GRCh38]
Chr15:74885530 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.388C>G (p.Gln130Glu) single nucleotide variant not specified [RCV004174826] Chr15:74544324 [GRCh38]
Chr15:74836665 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.679G>A (p.Val227Ile) single nucleotide variant not specified [RCV004188664] Chr15:74573186 [GRCh38]
Chr15:74865527 [GRCh37]
Chr15:15q24.1		 likely benign
NM_006465.4(ARID3B):c.622A>G (p.Lys208Glu) single nucleotide variant not specified [RCV004310755] Chr15:74572931 [GRCh38]
Chr15:74865272 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.1385G>A (p.Arg462Gln) single nucleotide variant not specified [RCV004249504] Chr15:74591779 [GRCh38]
Chr15:74884120 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.161C>T (p.Ser54Phe) single nucleotide variant not specified [RCV004277081] Chr15:74544097 [GRCh38]
Chr15:74836438 [GRCh37]
Chr15:15q24.1		 uncertain significance
GRCh37/hg19 15q22.33-26.1(chr15:67358491-91644328)x3 copy number gain not provided [RCV003222839] Chr15:67358491..91644328 [GRCh37]
Chr15:15q22.33-26.1		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:72943184-76085232) copy number loss Chromosome 15q24 deletion syndrome [RCV003319589] Chr15:72943184..76085232 [GRCh37]
Chr15:15q24.1-24.2		 pathogenic
GRCh37/hg19 15q24.1-24.2(chr15:74823917-75455431)x3 copy number gain not specified [RCV003987107] Chr15:74823917..75455431 [GRCh37]
Chr15:15q24.1-24.2		 uncertain significance
NM_006465.4(ARID3B):c.1249C>G (p.Arg417Gly) single nucleotide variant not specified [RCV004425310] Chr15:74591643 [GRCh38]
Chr15:74883984 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.1651A>G (p.Ser551Gly) single nucleotide variant not specified [RCV004425313] Chr15:74595742 [GRCh38]
Chr15:74888083 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.475A>G (p.Lys159Glu) single nucleotide variant not specified [RCV004425314] Chr15:74544411 [GRCh38]
Chr15:74836752 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.490G>A (p.Ala164Thr) single nucleotide variant not specified [RCV004425315] Chr15:74544426 [GRCh38]
Chr15:74836767 [GRCh37]
Chr15:15q24.1		 uncertain significance
NM_006465.4(ARID3B):c.1594A>G (p.Ser532Gly) single nucleotide variant not specified [RCV004425311] Chr15:74595685 [GRCh38]
Chr15:74888026 [GRCh37]
Chr15:15q24.1		 uncertain significance
miRNA Target Status

Confirmed Target Of
miRNA GeneMature miRNAMethod NameResult TypeData TypeSupport TypePMID
MIR125B1hsa-miR-125b-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI22307404
MIR125B1hsa-miR-125b-5pOncomiRDBexternal_infoNANA22307404
MIR125B2hsa-miR-125b-5pMirtarbaseexternal_infoLuciferase reporter assayFunctional MTI22307404
MIR125B2hsa-miR-125b-5pOncomiRDBexternal_infoNANA22307404
MIR125Ahsa-miR-125a-5pMirtarbaseexternal_infoImmunofluorescence//qRT-PCR//Western blotFunctional MTI19881956
MIR125Ahsa-miR-125a-5pMirecordsexternal_infoNANA19881956

Predicted Target Of
Summary Value
Count of predictions:2404
Count of miRNA genes:948
Interacting mature miRNAs:1190
Transcripts:ENST00000346246, ENST00000563567, ENST00000566147, ENST00000566468, ENST00000569680
Prediction methods:Miranda, Rnahybrid, Targetscan
Result types:miRGate_prediction

The detailed report is available here: Full Report CSV TAB Printer

miRNA Target Status data imported from miRGate (http://mirgate.bioinfo.cnio.es/).
For more information about miRGate, see PMID:25858286 or access the full paper here.

Markers in Region
D15S1320  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh37181,971,180 - 81,971,381UniSTSGRCh37
GRCh371574,890,141 - 74,890,342UniSTSGRCh37
GRCh371574,890,278 - 74,890,410UniSTSGRCh37
Build 361572,677,331 - 72,677,463RGDNCBI36
Celera180,203,835 - 80,204,036UniSTS
Celera1551,840,076 - 51,840,277UniSTS
Celera1551,840,213 - 51,840,345RGD
Cytogenetic Map15q24UniSTS
HuRef1551,688,439 - 51,688,571UniSTS
HuRef1551,688,302 - 51,688,503UniSTS
HuRef180,102,454 - 80,102,655UniSTS
Stanford-G3 RH Map152580.0UniSTS
GeneMap99-G3 RH Map152575.0UniSTS
SHGC-132023  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371574,890,290 - 74,890,400UniSTSGRCh37
Build 361572,677,343 - 72,677,453RGDNCBI36
Celera1551,840,225 - 51,840,335RGD
Cytogenetic Map15q24UniSTS
HuRef1551,688,451 - 51,688,561UniSTS
TNG Radiation Hybrid Map1528431.0UniSTS
RH44782  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371574,890,296 - 74,890,412UniSTSGRCh37
Build 361572,677,349 - 72,677,465RGDNCBI36
Celera1551,840,231 - 51,840,347RGD
Cytogenetic Map15q24UniSTS
HuRef1551,688,457 - 51,688,573UniSTS
GeneMap99-GB4 RH Map15254.56UniSTS
ARID3B_7977  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371574,889,756 - 74,890,662UniSTSGRCh37
Build 361572,676,809 - 72,677,715RGDNCBI36
Celera1551,839,691 - 51,840,597RGD
HuRef1551,687,917 - 51,688,823UniSTS
L17911  
Human AssemblyChrPosition (strand)SourceJBrowse
GRCh371574,836,230 - 74,836,483UniSTSGRCh37
GRCh37181,967,407 - 81,967,672UniSTSGRCh37
Build 36181,739,995 - 81,740,260RGDNCBI36
Celera1551,783,989 - 51,784,242UniSTS
Celera180,200,124 - 80,200,389RGD
Cytogenetic Map15q24UniSTS
Cytogenetic Map1p31.1UniSTS
HuRef1551,632,394 - 51,632,647UniSTS
HuRef180,098,681 - 80,098,946UniSTS
D15S1320  
Human AssemblyChrPosition (strand)SourceJBrowse
Cytogenetic Map1p31.1UniSTS
Cytogenetic Map15q24UniSTS
GeneMap99-G3 RH Map152580.0UniSTS


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 sensory system adipose tissue appendage entire extraembryonic component
High
Medium 171 722 250 24 1594 23 216 26 335 32 539 619 8 1 15 3
Low 2260 2234 1468 593 353 436 4137 2141 3324 383 909 989 162 1203 2772 1
Below cutoff 1 28 5 5 1 5 2 26 49 3 1

Sequence

Nucleotide Sequences
RefSeq Transcripts NM_001307939 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  NM_006465 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_007064418 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_007064419 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_008488912 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XR_008488913 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide AB208830 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AC100835 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AF116846 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK298716 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AK302034 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  AL137417 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC041792 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC045545 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  BC060824 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CH471136 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  CP068263 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DB455943 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  DC396899 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  KT583914 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

Reference Sequences
RefSeq Acc Id: ENST00000346246   ⟹   ENSP00000343126
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1574,541,220 - 74,598,131 (+)Ensembl
RefSeq Acc Id: ENST00000563567
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1574,596,596 - 74,597,977 (+)Ensembl
RefSeq Acc Id: ENST00000566147   ⟹   ENSP00000455668
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1574,544,350 - 74,591,408 (+)Ensembl
RefSeq Acc Id: ENST00000566468
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1574,591,187 - 74,593,201 (+)Ensembl
RefSeq Acc Id: ENST00000569680
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1574,541,264 - 74,575,017 (+)Ensembl
RefSeq Acc Id: ENST00000622429   ⟹   ENSP00000477878
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh38.p14 Ensembl1574,541,206 - 74,598,129 (+)Ensembl
RefSeq Acc Id: NM_001307939   ⟹   NP_001294868
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381574,541,220 - 74,598,131 (+)NCBI
CHM1_11574,951,967 - 75,008,919 (+)NCBI
T2T-CHM13v2.01572,408,943 - 72,468,032 (+)NCBI
Sequence:
RefSeq Acc Id: NM_006465   ⟹   NP_006456
RefSeq Status: REVIEWED
Type: CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381574,541,220 - 74,598,131 (+)NCBI
GRCh371574,833,518 - 74,890,472 (+)NCBI
Build 361572,620,601 - 72,677,525 (+)NCBI Archive
Celera1551,781,307 - 51,840,407 (+)RGD
HuRef1551,629,712 - 51,688,633 (+)RGD
CHM1_11574,951,967 - 75,008,919 (+)NCBI
T2T-CHM13v2.01572,408,943 - 72,468,032 (+)NCBI
Sequence:
RefSeq Acc Id: XR_007064418
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381574,543,860 - 74,598,131 (+)NCBI
RefSeq Acc Id: XR_007064419
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
GRCh381574,543,860 - 74,598,131 (+)NCBI
RefSeq Acc Id: XR_008488912
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.01572,411,583 - 72,468,032 (+)NCBI
RefSeq Acc Id: XR_008488913
Type: NON-CODING
Position:
Human AssemblyChrPosition (strand)Source
T2T-CHM13v2.01572,411,583 - 72,468,032 (+)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_006456   ⟸   NM_006465
- Peptide Label: isoform 2
- UniProtKB: B4DQB0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: NP_001294868   ⟸   NM_001307939
- Peptide Label: isoform 1
- UniProtKB: Q59HC9 (UniProtKB/Swiss-Prot),   O95443 (UniProtKB/Swiss-Prot),   Q6P9C9 (UniProtKB/Swiss-Prot),   Q8IVW6 (UniProtKB/Swiss-Prot),   B4DQB0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSP00000343126   ⟸   ENST00000346246
RefSeq Acc Id: ENSP00000477878   ⟸   ENST00000622429
RefSeq Acc Id: ENSP00000455668   ⟸   ENST00000566147
Protein Domains
ARID   REKLES

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q8IVW6-F1-model_v2 AlphaFold Q8IVW6 1-561 view protein structure

Promoters
RGD ID:6792104
Promoter ID:HG_KWN:21904
Type:CpG-Island
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:CD4+TCell,   CD4+TCell_12Hour,   CD4+TCell_2Hour,   HeLa_S3,   Jurkat,   K562,   Lymphoblastoid,   NB4
Transcripts:OTTHUMT00000280688,   UC002AYC.2,   UC002AYE.1
Position:
Human AssemblyChrPosition (strand)Source
Build 361572,620,171 - 72,620,707 (+)MPROMDB
RGD ID:6792105
Promoter ID:HG_KWN:21905
Type:Non-CpG
SO ACC ID:SO:0000170
Source:MPROMDB
Tissues & Cell Lines:Lymphoblastoid
Transcripts:UC010BJS.1
Position:
Human AssemblyChrPosition (strand)Source
Build 361572,669,799 - 72,670,299 (+)MPROMDB
RGD ID:7230091
Promoter ID:EPDNEW_H20791
Type:initiation region
Name:ARID3B_1
Description:AT-rich interaction domain 3B
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Human AssemblyChrPosition (strand)Source
GRCh381574,541,257 - 74,541,317EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene HGNC:14350 AgrOrtholog
COSMIC ARID3B COSMIC
Ensembl Genes ENSG00000179361 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Ensembl Transcript ENST00000346246 ENTREZGENE
  ENST00000346246.10 UniProtKB/Swiss-Prot
  ENST00000566147.1 UniProtKB/TrEMBL
  ENST00000622429 ENTREZGENE
  ENST00000622429.1 UniProtKB/Swiss-Prot
Gene3D-CATH 1.10.150.60 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
GTEx ENSG00000179361 GTEx
HGNC ID HGNC:14350 ENTREZGENE
Human Proteome Map ARID3B Human Proteome Map
InterPro ARI3A/B/C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ARID_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ARID_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  REKLES_domain UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report hsa:10620 UniProtKB/Swiss-Prot
NCBI Gene 10620 ENTREZGENE
OMIM 612457 OMIM
PANTHER AT-RICH INTERACTIVE DOMAIN-CONTAINING PROTEIN 3B UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR15348 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam ARID UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PharmGKB PA134896829 PharmGKB
PROSITE ARID UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  REKLES UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART ARID UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  BRIGHT UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF46774 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt ARI3B_HUMAN UniProtKB/Swiss-Prot
  B4DQB0 ENTREZGENE, UniProtKB/TrEMBL
  H3BQ92_HUMAN UniProtKB/TrEMBL
  O95443 ENTREZGENE
  Q59HC9 ENTREZGENE
  Q6P9C9 ENTREZGENE
  Q8IVW6 ENTREZGENE
UniProt Secondary O95443 UniProtKB/Swiss-Prot
  Q59HC9 UniProtKB/Swiss-Prot
  Q6P9C9 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2015-11-24 ARID3B  AT-rich interaction domain 3B  ARID3B  AT rich interactive domain 3B (BRIGHT-like)  Symbol and/or name change 5135510 APPROVED