H3f3b (H3 histone, family 3B) - Rat Genome Database

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Gene: H3f3b (H3 histone, family 3B) Chinchilla lanigera
Analyze
Symbol: H3f3b
Name: H3 histone, family 3B
RGD ID: 8700604
Description: ENCODES a protein that exhibits nucleosomal DNA binding (ortholog); RNA polymerase II cis-regulatory region sequence-specific DNA binding (ortholog); RNA polymerase II core promoter sequence-specific DNA binding (ortholog); INVOLVED IN cell population proliferation (ortholog); embryo implantation (ortholog); male gonad development (ortholog); PARTICIPATES IN histone modification pathway; ASSOCIATED WITH Animal Mammary Neoplasms (ortholog); Bryant-Li-Bhoj neurodevelopmental syndrome 2 (ortholog); carcinoma (ortholog); FOUND IN chromosome, telomeric region (ortholog); nucleoplasm (ortholog); nucleosome (ortholog)
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: H3 histone, family 3B (H3.3B); histone H3.3; uncharacterized protein LOC102012783
RGD Orthologs
Human
Mouse
Rat
Bonobo
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: ChiLan1.0 - Chinchilla ChiLan1.0 Assembly
NCBI Annotation Information: Annotation category: partial on reference assembly
Position:
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555066,474,727 - 6,482,244 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555066,475,336 - 6,478,781 (+)NCBIChiLan1.0ChiLan1.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Pathway Annotations     Click to see Annotation Detail View
References

References - curated
# Reference Title Reference Citation
1. Transitive Annotation Pipeline Automated assignment of GO, PW and RDO ISO annotations across species
Additional References at PubMed
PMID:22301074   PMID:30032202  


Genomics

Comparative Map Data
H3f3b
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555066,474,727 - 6,482,244 (+)EnsemblChiLan1.0
ChiLan1.0NW_0049555066,475,336 - 6,478,781 (+)NCBIChiLan1.0ChiLan1.0
H3-3B
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381775,776,434 - 75,779,779 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1775,776,434 - 75,785,893 (-)EnsemblGRCh38hg38GRCh38
GRCh371773,772,515 - 73,775,860 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361771,284,110 - 71,287,455 (-)NCBINCBI36Build 36hg18NCBI36
Build 341771,284,111 - 71,287,455NCBI
Celera1770,362,565 - 70,365,910 (-)NCBICelera
Cytogenetic Map17q25.1NCBI
HuRef1769,198,034 - 69,201,379 (-)NCBIHuRef
CHM1_11773,837,589 - 73,840,931 (-)NCBICHM1_1
T2T-CHM13v2.01776,669,660 - 76,678,707 (-)NCBIT2T-CHM13v2.0
H3f3b
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm3911115,912,787 - 115,921,313 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl11115,912,738 - 115,918,788 (-)EnsemblGRCm39 Ensembl
GRCm3811116,021,961 - 116,026,039 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl11116,021,912 - 116,027,962 (-)EnsemblGRCm38mm10GRCm38
MGSCv3711115,883,275 - 115,885,818 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv3611115,837,018 - 115,840,587 (-)NCBIMGSCv36mm8
Celera11127,784,227 - 127,786,770 (-)NCBICelera
Cytogenetic Map11E2NCBI
cM Map1180.91NCBI
H3f3b
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr810101,755,404 - 101,764,616 (-)NCBIGRCr8
mRatBN7.210101,256,484 - 101,258,716 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl10101,256,480 - 101,258,709 (-)EnsemblmRatBN7.2 Ensembl
mRatBN7.2 Ensembl1392,533,298 - 92,544,908 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx10106,317,943 - 106,320,175 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.010105,781,026 - 105,783,258 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.010101,177,427 - 101,179,659 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.010104,573,666 - 104,575,890 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl10104,573,664 - 104,575,890 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.010103,709,482 - 103,711,706 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.410106,130,320 - 106,132,544 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.110106,144,823 - 106,147,045 (-)NCBI
Celera1099,830,619 - 99,832,836 (-)NCBICelera
Cytogenetic Map10q32.1NCBI
LOC100988671
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21991,821,558 - 91,824,038 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11796,646,832 - 96,648,754 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01769,728,165 - 69,730,519 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11775,277,614 - 75,281,106 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1775,277,614 - 75,281,106 (-)Ensemblpanpan1.1panPan2
LOC101963257
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_0244056025,450,377 - 5,452,805 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936594958,049 - 961,708 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936594959,493 - 961,703 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
H3-3B
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl125,632,365 - 5,634,726 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.1125,632,326 - 5,634,977 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2125,578,702 - 5,581,109 (+)NCBISscrofa10.2Sscrofa10.2susScr3
LOC103243033
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11645,903,252 - 45,905,605 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1645,902,980 - 45,904,929 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366607716,660,280 - 16,662,641 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
LOC101698172
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_0046248015,668,661 - 5,672,164 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression

RNA-SEQ Expression


Sequence


Ensembl Acc Id: ENSCLAT00000013578   ⟹   ENSCLAP00000013425
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0 EnsemblNW_0049555066,474,727 - 6,482,244 (+)Ensembl
RefSeq Acc Id: NM_001282367   ⟹   NP_001269296
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Chinchilla AssemblyChrPosition (strand)Source
ChiLan1.0NW_0049555066,475,336 - 6,478,781 (+)NCBI
Sequence:
Protein Sequences
Protein RefSeqs NP_001269296 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAS59415 (Get FASTA)   NCBI Sequence Viewer  
  CAR80825 (Get FASTA)   NCBI Sequence Viewer  
  CBX84296 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSCLAP00000013425
RefSeq Acc Id: NP_001269296   ⟸   NM_001282367
- UniProtKB: Q6QN07 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSCLAP00000013425   ⟸   ENSCLAT00000013578
Protein Domains
Histone H2A/H2B/H3


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCLAG00000009278 Ensembl, ENTREZGENE
Ensembl Transcript ENSCLAT00000013578 ENTREZGENE
Gene3D-CATH 1.10.20.10 UniProtKB/TrEMBL
InterPro Histone-fold UniProtKB/TrEMBL
  Histone_H2A/H2B/H3 UniProtKB/TrEMBL
  Histone_H3/CENP-A UniProtKB/TrEMBL
NCBI Gene LOC102012783 ENTREZGENE
PANTHER PTHR11426 UniProtKB/TrEMBL
Pfam Histone UniProtKB/TrEMBL
PRINTS HISTONEH3 UniProtKB/TrEMBL
PROSITE HISTONE_H3_1 UniProtKB/TrEMBL
  HISTONE_H3_2 UniProtKB/TrEMBL
SMART SM00428 UniProtKB/TrEMBL
Superfamily-SCOP SSF47113 UniProtKB/TrEMBL
UniProt Q6QN07 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-08-03 H3f3b  H3 histone, family 3B    H3 histone, family 3B (H3.3B)  Symbol and/or name change 5135510 APPROVED
2015-08-25 H3f3b  H3 histone, family 3B (H3.3B)  LOC102012783  histone H3.3-like  Symbol and/or name change 5135510 APPROVED