Btbd2 (BTB domain containing 2) - Rat Genome Database

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Gene: Btbd2 (BTB domain containing 2) Rattus norvegicus
Analyze
Symbol: Btbd2
Name: BTB domain containing 2
RGD ID: 1566094
Description: Predicted to be involved in neurogenesis. Predicted to be active in P-body and cytosol. Orthologous to human BTBD2 (BTB domain containing 2); INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 6-propyl-2-thiouracil.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: BTB (POZ) domain containing 2; BTB/POZ domain-containing protein 2; LOC500793; RGD1566094; similar to BTB (PO)Z domain containing 2
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr879,710,392 - 9,726,032 (+)NCBIGRCr8
mRatBN7.279,058,609 - 9,075,341 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl79,060,788 - 9,075,344 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0711,929,859 - 11,943,559 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl711,930,135 - 11,942,799 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0712,096,635 - 12,111,084 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4710,568,395 - 10,585,686 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera77,244,301 - 7,257,688 (+)NCBICelera
Cytogenetic Map7q11NCBI
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
neurogenesis  (IBA)

Cellular Component
cytosol  (IBA)
P-body  (IBA,ISO)

Molecular Function

References

References - curated
# Reference Title Reference Citation
1. Phylogenetic-based propagation of functional annotations within the Gene Ontology consortium. Gaudet P, etal., Brief Bioinform. 2011 Sep;12(5):449-62. doi: 10.1093/bib/bbr042. Epub 2011 Aug 27.
2. GOA pipeline RGD automated data pipeline
3. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
4. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:12878161  


Genomics

Comparative Map Data
Btbd2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr879,710,392 - 9,726,032 (+)NCBIGRCr8
mRatBN7.279,058,609 - 9,075,341 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl79,060,788 - 9,075,344 (+)EnsemblmRatBN7.2 Ensembl
Rnor_6.0711,929,859 - 11,943,559 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl711,930,135 - 11,942,799 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0712,096,635 - 12,111,084 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4710,568,395 - 10,585,686 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera77,244,301 - 7,257,688 (+)NCBICelera
Cytogenetic Map7q11NCBI
BTBD2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38191,985,448 - 2,015,714 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl191,985,438 - 2,034,881 (-)EnsemblGRCh38hg38GRCh38
GRCh37191,985,447 - 2,015,713 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 36191,936,447 - 1,966,702 (-)NCBINCBI36Build 36hg18NCBI36
Build 34191,936,446 - 1,966,702NCBI
Celera191,919,445 - 1,949,684 (-)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef191,757,711 - 1,787,607 (-)NCBIHuRef
CHM1_1191,985,030 - 2,042,053 (-)NCBICHM1_1
T2T-CHM13v2.0191,957,946 - 1,988,205 (-)NCBIT2T-CHM13v2.0
Btbd2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391080,478,457 - 80,492,328 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1080,478,451 - 80,492,328 (-)EnsemblGRCm39 Ensembl
GRCm381080,642,623 - 80,656,494 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1080,642,617 - 80,657,071 (-)EnsemblGRCm38mm10GRCm38
MGSCv371080,105,362 - 80,119,816 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361080,045,744 - 80,060,200 (-)NCBIMGSCv36mm8
Celera1081,660,441 - 81,674,650 (-)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Btbd2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554956,072,112 - 6,084,298 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049554956,072,112 - 6,085,180 (+)NCBIChiLan1.0ChiLan1.0
BTBD2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2206,363,322 - 6,394,085 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1195,593,728 - 5,624,804 (-)NCBINHGRI_mPanPan1
PanPan1.1191,966,082 - 2,009,494 (-)NCBIpanpan1.1PanPan1.1panPan2
BTBD2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12056,999,749 - 57,008,283 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2057,000,016 - 57,007,467 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha2056,785,596 - 56,802,488 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.02057,723,543 - 57,740,530 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2057,723,305 - 57,740,508 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12056,780,653 - 56,797,678 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02057,260,651 - 57,277,506 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02057,461,272 - 57,478,190 (+)NCBIUU_Cfam_GSD_1.0
Btbd2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118216,657,919 - 216,683,793 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365881,152,001 - 1,165,613 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049365881,150,993 - 1,165,607 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
BTBD2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl276,538,523 - 76,559,919 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1276,538,538 - 76,559,928 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2277,132,096 - 77,264,712 (+)NCBISscrofa10.2Sscrofa10.2susScr3
BTBD2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.161,785,433 - 1,809,931 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660816,937,737 - 6,982,255 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Btbd2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248286,815,966 - 6,828,233 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Btbd2
27 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:73
Count of miRNA genes:71
Interacting mature miRNAs:73
Transcripts:ENSRNOT00000025391
Prediction methods:Miranda, Rnahybrid
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.


QTLs in Region (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7127829089Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7131962314Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7131962314Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134000259Rat
2317047Wbc4White blood cell count QTL 40.01leukocyte quantity (VT:0000217)white blood cell count (CMO:0000027)7135342956Rat
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7144782185Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7144822433Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)766427026029351Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)7924703115097879Rat
10755438Coatc9Coat color QTL 90coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7352928048529280Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7532901950329019Rat
10755440Coatc10Coat color QTL 100coat/hair pigmentation trait (VT:0010463)pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)7749649952496499Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7757398552573985Rat

Markers in Region
BE105537  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.279,062,987 - 9,063,148 (+)MAPPERmRatBN7.2
Rnor_6.0711,931,319 - 11,931,479NCBIRnor6.0
Rnor_5.0712,098,621 - 12,098,781UniSTSRnor5.0
RGSC_v3.4710,573,515 - 10,573,675UniSTSRGSC3.4
Celera77,245,352 - 7,245,512UniSTS
RH 3.4 Map740.9UniSTS
Cytogenetic Map7q11UniSTS
RH140488  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.279,075,000 - 9,075,243 (+)MAPPERmRatBN7.2
Rnor_6.0711,943,219 - 11,943,461NCBIRnor6.0
Rnor_5.0712,110,744 - 12,110,986UniSTSRnor5.0
RGSC_v3.4710,585,508 - 10,585,750UniSTSRGSC3.4
Celera77,257,348 - 7,257,590UniSTS
RH 3.4 Map739.9UniSTS
Cytogenetic Map7q11UniSTS


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 appendage
High
Medium 3 37 47 31 17 31 3 74 35 36 11
Low 6 10 10 2 10 8 8 5 8
Below cutoff

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000025391   ⟹   ENSRNOP00000025391
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl79,060,788 - 9,075,344 (+)Ensembl
Rnor_6.0 Ensembl711,930,135 - 11,942,799 (+)Ensembl
RefSeq Acc Id: NM_001426907   ⟹   NP_001413836
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,712,269 - 9,726,032 (+)NCBI
RefSeq Acc Id: XM_039080444   ⟹   XP_038936372
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,710,404 - 9,726,032 (+)NCBI
mRatBN7.279,059,710 - 9,075,341 (+)NCBI
RefSeq Acc Id: XM_039080445   ⟹   XP_038936373
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,710,392 - 9,726,032 (+)NCBI
mRatBN7.279,058,609 - 9,075,341 (+)NCBI
RefSeq Acc Id: XM_063264094   ⟹   XP_063120164
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,710,510 - 9,726,032 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001413836 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936372 (Get FASTA)   NCBI Sequence Viewer  
  XP_038936373 (Get FASTA)   NCBI Sequence Viewer  
  XP_063120164 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL89252 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000025391
  ENSRNOP00000025391.7
Reference Protein Sequences
RefSeq Acc Id: ENSRNOP00000025391   ⟸   ENSRNOT00000025391
RefSeq Acc Id: XP_038936373   ⟸   XM_039080445
- Peptide Label: isoform X2
RefSeq Acc Id: XP_038936372   ⟸   XM_039080444
- Peptide Label: isoform X1
- UniProtKB: F1M311 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063120164   ⟸   XM_063264094
- Peptide Label: isoform X3
RefSeq Acc Id: NP_001413836   ⟸   NM_001426907
Protein Domains
BTB

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-F1M311-F1-model_v2 AlphaFold F1M311 1-377 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1566094 AgrOrtholog
BioCyc Gene G2FUF-34957 BioCyc
Ensembl Genes ENSRNOG00000018788 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000025391.7 UniProtKB/TrEMBL
Gene3D-CATH 1.25.40.420 UniProtKB/TrEMBL
  2.60.120.820 UniProtKB/TrEMBL
InterPro BACK UniProtKB/TrEMBL
  BTB/POZ-like UniProtKB/TrEMBL
  BTB/POZ_fold UniProtKB/TrEMBL
  PHR UniProtKB/TrEMBL
  PHR_sf UniProtKB/TrEMBL
NCBI Gene 500793 ENTREZGENE
PANTHER BTB/POZ DOMAIN-CONTAINING UniProtKB/TrEMBL
  BTB/POZ DOMAIN-CONTAINING PROTEIN 2 UniProtKB/TrEMBL
Pfam BACK UniProtKB/TrEMBL
  BTB UniProtKB/TrEMBL
  PHR UniProtKB/TrEMBL
PhenoGen Btbd2 PhenoGen
PROSITE BTB UniProtKB/TrEMBL
RatGTEx ENSRNOG00000018788 RatGTEx
SMART BACK UniProtKB/TrEMBL
  BTB UniProtKB/TrEMBL
Superfamily-SCOP BTB/POZ_fold UniProtKB/TrEMBL
UniProt F1M311 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-02-17 Btbd2  BTB domain containing 2  Btbd2  BTB (POZ) domain containing 2  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-03-07 Btbd2  BTB (POZ) domain containing 2  RGD1566094_predicted  similar to BTB (PO)Z domain containing 2 (predicted)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2006-03-07 RGD1566094_predicted  similar to BTB (PO)Z domain containing 2 (predicted)  LOC500793  similar to BTB (PO)Z domain containing 2  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC500793  similar to BTB (PO)Z domain containing 2      Symbol and Name status set to provisional 70820 PROVISIONAL