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Gene: Chaf1b (chromatin assembly factor 1 subunit B) Rattus norvegicus

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Symbol:

Chaf1b

Name:

chromatin assembly factor 1 subunit B

RGD ID:

1307634

Description:

Predicted to be involved in DNA replication-dependent chromatin assembly and nucleosome assembly. Predicted to be located in chromatin. Predicted to be part of CAF-1 complex. Predicted to be active in nucleus. Orthologous to human CHAF1B (chromatin assembly factor 1 subunit B); PARTICIPATES IN histone modification pathway; INTERACTS WITH 1-naphthyl isothiocyanate; 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine.

Type:

protein-coding

RefSeq Status:

PROVISIONAL

Previously known as:

chromatin assembly factor 1, subunit B (p60); LOC288242

RGD Orthologs

Alliance Orthologs

More Info

more info ...

More Info

Species	Gene symbol and name	Data Source	Assertion derived from	less info ...
Orthologs ¹				less info ...
Homo sapiens (human):	CHAF1B (chromatin assembly factor 1 subunit B)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, PhylomeDB, Treefam
Mus musculus (house mouse):	Chaf1b (chromatin assembly factor 1, subunit B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Chaf1b (chromatin assembly factor 1 subunit B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	CHAF1B (chromatin assembly factor 1 subunit B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	CHAF1B (chromatin assembly factor 1 subunit B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Chaf1b (chromatin assembly factor 1 subunit B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	CHAF1B (chromatin assembly factor 1 subunit B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	CHAF1B (chromatin assembly factor 1 subunit B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Chaf1b (chromatin assembly factor 1 subunit B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Rattus rattus (black rat):	Chaf1b (chromatin assembly factor 1 subunit B)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	CHAF1B (chromatin assembly factor 1 subunit B)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Chaf1b (chromatin assembly factor 1, subunit B)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	chaf1b (chromatin assembly factor 1, subunit B)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	CAC2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Caf1-105	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	chaf-2	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	chaf1b	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

GRCr8 - GRCr8 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	11	46,670,560 - 46,690,739 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	11	46,670,630 - 46,690,733 (+)	Ensembl				GRCr8
mRatBN7.2	11	33,200,894 - 33,221,076 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	33,200,981 - 33,221,070 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	11	41,855,494 - 41,875,617 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	34,526,850 - 34,546,973 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	33,676,813 - 33,696,953 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	34,101,248 - 34,121,371 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	34,101,197 - 34,121,378 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	11	37,690,476 - 37,710,591 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	11	34,110,848 - 34,130,928 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	11	35,223,726 - 35,243,858 (-)	NCBI		Celera
RGSC_v3.1	11	34,167,090 - 34,187,170 (+)	NCBI
Cytogenetic Map	11	q11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Developmental Disabilities (ISO)

glioblastoma (ISO)

hepatocellular carcinoma (ISO)

high grade glioma (ISO)

mouth disease (ISO)

Neoplastic Processes (ISO)

oral squamous cell carcinoma (ISO)

prostate cancer (ISO)

Salivary Gland Neoplasms (ISO)

skin melanoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(S)-colchicine (ISO)

1,1-dichloroethene (ISO)

1,2,4-trichloro-5-(2,5-dichlorophenyl)benzene (ISO)

1,2-dimethylhydrazine (ISO)

1-naphthyl isothiocyanate (EXP)

17alpha-ethynylestradiol (ISO)

17beta-estradiol (EXP,ISO)

2,2',4,4',5,5'-hexachlorobiphenyl (ISO)

2,2',5,5'-tetrachlorobiphenyl (ISO)

2,3,7,8-tetrachlorodibenzodioxine (EXP,ISO)

2,4,4'-trichlorobiphenyl (ISO)

3-isobutyl-1-methyl-7H-xanthine (ISO)

4,4'-diaminodiphenylmethane (ISO)

4,4'-sulfonyldiphenol (ISO)

4-hydroxyphenyl retinamide (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

acrylamide (EXP,ISO)

adenine (ISO)

aflatoxin B1 (EXP,ISO)

all-trans-retinoic acid (ISO)

amitrole (EXP)

arecoline (ISO)

atrazine (ISO)

benzo[a]pyrene (ISO)

benzo[b]fluoranthene (ISO)

beta-naphthoflavone (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bisphenol F (ISO)

cadmium dichloride (ISO)

caffeine (ISO)

calcitriol (ISO)

carbon nanotube (ISO)

cefaloridine (EXP)

chlorpyrifos (ISO)

chromium(6+) (ISO)

cisplatin (ISO)

clofibrate (ISO)

copper(II) sulfate (ISO)

corosolic acid (ISO)

coumarin (ISO)

coumestrol (ISO)

Cuprizon (EXP)

cyclosporin A (ISO)

DDE (ISO)

dexamethasone (ISO)

dibenz[a,h]anthracene (ISO)

Dibutyl phosphate (ISO)

dibutyl phthalate (ISO)

dioxygen (ISO)

disodium selenite (ISO)

endosulfan (EXP)

Enterolactone (ISO)

epoxiconazole (ISO)

ethyl methanesulfonate (ISO)

fenvalerate (EXP)

folic acid (ISO)

FR900359 (ISO)

furan (EXP)

glycerol 2-phosphate (ISO)

GSK-J4 (ISO)

imiquimod (ISO)

indometacin (ISO)

L-ascorbic acid (ISO)

lidocaine (EXP)

methimazole (EXP)

methyl methanesulfonate (ISO)

mitomycin C (ISO)

N-nitrosodiethylamine (ISO)

okadaic acid (ISO)

oxaliplatin (EXP)

ozone (ISO)

paracetamol (EXP,ISO)

PCB138 (ISO)

phenethyl isothiocyanate (ISO)

phenobarbital (ISO)

pinosylvin (ISO)

pirinixic acid (ISO)

progesterone (ISO)

quercetin (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sodium dichromate (EXP)

sulfadimethoxine (EXP)

sunitinib (ISO)

testosterone (ISO)

tetrachloromethane (ISO)

thapsigargin (ISO)

thioacetamide (EXP)

titanium dioxide (EXP,ISO)

topotecan (EXP)

trans-pinosylvin (ISO)

trimellitic anhydride (ISO)

troglitazone (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

chromatin organization (IEA)

DNA damage response (IEA)

DNA repair (IEA)

DNA replication (IEA)

DNA replication-dependent chromatin assembly (IEA,ISO)

nucleosome assembly (IBA,IEA,ISO)

Cellular Component

CAF-1 complex (IBA,IEA,ISO)

chromatin (IEA,ISO)

cytoplasm (IEA)

nucleoplasm (IEA,ISO)

nucleus (IBA,IEA)

protein-containing complex (IEA,ISO)

Molecular Function

protein binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

histone modification pathway (ISO)

References

References - curated

#	Reference Title	Reference Citation
1.	Histone chaperones in nucleosome assembly and human disease.	Burgess RJ and Zhang Z, Nat Struct Mol Biol. 2013 Jan;20(1):14-22. doi: 10.1038/nsmb.2461.
2.	Prognostic significance of EDN/RB, HJURP, p60/CAF-1 and PDLI4, four new markers in high-grade gliomas.	de Tayrac M, etal., PLoS One. 2013 Sep 11;8(9):e73332. doi: 10.1371/journal.pone.0073332. eCollection 2013.
3.	Antibody against chromatin assembly factor-1 is a novel autoantibody specifically recognized in systemic lupus erythematosus.	Doe K, etal., Lupus. 2014 Sep;23(10):1031-41. doi: 10.1177/0961203314536245. Epub 2014 May 16.
4.	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.
5.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
6.	Overexpression of Chromatin Assembly Factor-1/p60 helps to predict the prognosis of melanoma patients.	Mascolo M, etal., BMC Cancer. 2010 Feb 24;10:63. doi: 10.1186/1471-2407-10-63.
7.	Overexpression of chromatin assembly factor-1 p60, poly(ADP-ribose) polymerase 1 and nestin predicts metastasizing behaviour of oral cancer.	Mascolo M, etal., Histopathology. 2012 Dec;61(6):1089-105. doi: 10.1111/j.1365-2559.2012.04313.x. Epub 2012 Aug 8.
8.	GOA pipeline	RGD automated data pipeline
9.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
10.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
11.	Overexpression of chromatin assembly factor-1 (CAF-1) p60 is predictive of adverse behaviour of prostatic cancer.	Staibano S, etal., Histopathology. 2009 Apr;54(5):580-9. doi: 10.1111/j.1365-2559.2009.03266.x. Epub 2009 Mar 20.
12.	The proliferation marker Chromatin Assembly Factor-1 is of clinical value in predicting the biological behaviour of salivary gland tumours.	Staibano S, etal., Oncol Rep. 2011 Jan;25(1):13-22.

Additional References at PubMed

PMID:8858152	PMID:12477932	PMID:14718166	PMID:16780588	PMID:34626773

Genomics

Comparative Map Data

Chaf1b
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	11	46,670,560 - 46,690,739 (+)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	11	46,670,630 - 46,690,733 (+)	Ensembl				GRCr8
mRatBN7.2	11	33,200,894 - 33,221,076 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	11	33,200,981 - 33,221,070 (+)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	11	41,855,494 - 41,875,617 (+)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	11	34,526,850 - 34,546,973 (+)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	11	33,676,813 - 33,696,953 (+)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	11	34,101,248 - 34,121,371 (+)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	11	34,101,197 - 34,121,378 (+)	Ensembl			rn6	Rnor6.0
Rnor_5.0	11	37,690,476 - 37,710,591 (+)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	11	34,110,848 - 34,130,928 (+)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	11	35,223,726 - 35,243,858 (-)	NCBI		Celera
RGSC_v3.1	11	34,167,090 - 34,187,170 (+)	NCBI
Cytogenetic Map	11	q11	NCBI

CHAF1B
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	21	36,385,392 - 36,419,015 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	21	36,385,354 - 36,419,015 (+)	Ensembl			hg38	GRCh38
GRCh37	21	37,757,690 - 37,791,313 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	21	36,679,559 - 36,710,995 (+)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	21	36,679,558 - 36,710,994	NCBI
Celera	21	22,956,076 - 22,987,501 (+)	NCBI		Celera
Cytogenetic Map	21	q22.12-q22.13	NCBI
HuRef	21	23,233,429 - 23,264,863 (+)	NCBI		HuRef
CHM1_1	21	37,319,551 - 37,350,873 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	21	34,767,975 - 34,801,594 (+)	NCBI		T2T-CHM13v2.0

Chaf1b
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	16	93,680,801 - 93,703,003 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	16	93,680,789 - 93,703,003 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	16	93,883,900 - 93,906,115 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	16	93,883,901 - 93,906,115 (+)	Ensembl			mm10	GRCm38
MGSCv37	16	93,884,146 - 93,906,351 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	16	93,772,441 - 93,794,646 (+)	NCBI		MGSCv36	mm8
Celera	16	94,972,620 - 94,994,875 (+)	NCBI		Celera
Cytogenetic Map	16	C4	NCBI
cM Map	16	54.96	NCBI

Chaf1b
(Chinchilla lanigera - long-tailed chinchilla)

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955407	35,602,819 - 35,617,917 (+)	Ensembl
ChiLan1.0	NW_004955407	35,601,992 - 35,618,287 (+)	NCBI	ChiLan1.0	ChiLan1.0

CHAF1B
(Pan paniscus - bonobo/pygmy chimpanzee)

Bonobo Assembly	Chr	Position (strand)	Source	Genome Browsers
Bonobo Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
NHGRI_mPanPan1-v2	22	32,506,196 - 32,537,434 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	21	27,366,151 - 27,397,330 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	21	22,755,721 - 22,786,958 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	21	36,113,971 - 36,143,575 (+)	NCBI	PanPan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	21	36,113,971 - 36,143,575 (+)	Ensembl			panPan2	panpan1.1

CHAF1B
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	31	31,599,840 - 31,620,436 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	31	31,600,448 - 31,619,784 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	31	30,661,315 - 30,681,936 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	31	30,902,480 - 30,923,086 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	31	30,902,540 - 30,923,076 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	31	30,768,724 - 30,789,563 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	31	30,782,423 - 30,803,066 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	31	31,273,564 - 31,294,221 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Chaf1b
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)

Squirrel Assembly	Chr	Position (strand)	Source	Genome Browsers
Squirrel Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HiC_Itri_2	NW_024404971	31,178,964 - 31,205,595 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936500	6,262,229 - 6,288,839 (-)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936500	6,262,207 - 6,288,833 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

CHAF1B
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	13	200,048,149 - 200,072,556 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	13	200,048,096 - 200,074,902 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	13	210,075,142 - 210,099,935 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

CHAF1B
(Chlorocebus sabaeus - green monkey)

Green Monkey Assembly	Chr	Position (strand)	Source	Genome Browsers
Green Monkey Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChlSab1.1	2	80,379,637 - 80,409,626 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	2	80,380,425 - 80,409,687 (+)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666054	8,220,489 - 8,249,863 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Chaf1b
(Heterocephalus glaber - naked mole-rat)

Naked Mole-Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Naked Mole-Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
HetGla_female_1.0 Ensembl	NW_004624745	27,095,361 - 27,117,669 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624745	27,094,302 - 27,117,957 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Chaf1b
(Rattus rattus - black rat)

Black Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Black Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Rrattus_CSIRO_v1	4	50,744,405 - 50,764,245 (-)	NCBI		Rrattus_CSIRO_v1

Variants

Variants in Chaf1b
113 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	33
Count of miRNA genes:	33
Interacting mature miRNAs:	33
Transcripts:	ENSRNOT00000002299
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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
1300147	Bp187	Blood pressure QTL 187	3.67		arterial blood pressure trait (VT:2000000)	blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)	11	22524746	82951192	Rat
724554	Iddm17	Insulin dependent diabetes mellitus QTL 17		0.001	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	11	46443168	91443168	Rat
1598841	Memor7	Memory QTL 7			exploratory behavior trait (VT:0010471)	total horizontal distance resulting from voluntary locomotion in an experimental apparatus (CMO:0001443)	11	33306008	78306008	Rat
1598842	Glom10	Glomerulus QTL 10	3.4		kidney glomerulus morphology trait (VT:0005325)	index of glomerular damage (CMO:0001135)	11	3818154	48818154	Rat
1598811	Bp291	Blood pressure QTL 291	1.9		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	33306008	78306008	Rat
634339	Niddm50	Non-insulin dependent diabetes mellitus QTL 50	3.32		blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	11	10806125	55806125	Rat
634341	Bw121	Body weight QTL 121	3.56		abdominal fat pad mass (VT:1000711)	abdominal fat pad weight (CMO:0000088)	11	35323199	55805892	Rat
8694376	Bw156	Body weight QTL 156	2.25	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	36749459	81749459	Rat
10755497	Bp388	Blood pressure QTL 388	2.76		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	11	32943067	89836615	Rat
724517	Uae18	Urinary albumin excretion QTL 18	3.7		urine albumin amount (VT:0002871)	urine albumin excretion rate (CMO:0000757)	11	29958996	57754989	Rat
1300130	Rf20	Renal function QTL 20	4.44		kidney glomerulus integrity trait (VT:0010546)	kidney glomerulus diameter (CMO:0001166)	11	31915469	76915469	Rat
2290451	Scl58	Serum cholesterol level QTL 58	3.48		blood cholesterol amount (VT:0000180)	plasma total cholesterol level (CMO:0000585)	11	26318031	55806125	Rat
10058952	Gmadr6	Adrenal mass QTL 6	2.29	0.0072	adrenal gland mass (VT:0010420)	both adrenal glands wet weight to body weight ratio (CMO:0002411)	11	36428416	81428416	Rat
1600394	Edcs1	Endometrial carcinoma susceptibility QTL1	2.9	0.04	uterus morphology trait (VT:0001120)	percentage of study population developing endometrioid carcinoma during a period of time (CMO:0001759)	11	12823152	57823152	Rat
1558659	Tescar1	Testicular tumor resistance QTL 1	3.9		testis integrity trait (VT:0010572)	percentage of study population developing testis tumors during a period of time (CMO:0001261)	11	34618760	79618760	Rat
724563	Uae10	Urinary albumin excretion QTL 10	6		urine albumin amount (VT:0002871)	urine albumin level (CMO:0000130)	11	20193549	96351019	Rat
9589032	Epfw10	Epididymal fat weight QTL 10	9.29	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	11	36749459	81749459	Rat
9590313	Scort20	Serum corticosterone level QTL 20	6.51	0.001	blood corticosterone amount (VT:0005345)	plasma corticosterone level (CMO:0001173)	11	36749459	81749459	Rat
8694424	Bw162	Body weight QTL 162	3.8	0.001	body lean mass (VT:0010483)	lean tissue morphological measurement (CMO:0002184)	11	36749459	81749459	Rat
631510	Spl2	Serum phospholipid level QTL 2	4.1		blood phospholipid amount (VT:0006084)	serum phospholipid level (CMO:0001171)	11	27556685	72556685	Rat

Markers in Region

RH131285

Rat Assembly	Chr	Position (strand)	Source	JBrowse
GRCr8	11	46,689,809 - 46,690,614 (+)	Marker Load Pipeline
mRatBN7.2	11	33,220,146 - 33,220,951 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	34,120,451 - 34,121,255	NCBI	Rnor6.0
Rnor_5.0	11	37,709,671 - 37,710,475	UniSTS	Rnor5.0
RGSC_v3.4	11	34,130,008 - 34,130,812	UniSTS	RGSC3.4
Celera	11	35,223,842 - 35,224,646	UniSTS
Cytogenetic Map	11	q11	UniSTS

AFM286zb1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	11	33,207,473 - 33,208,612 (+)	MAPPER	mRatBN7.2
Rnor_6.0	11	34,107,780 - 34,108,918	NCBI	Rnor6.0
Rnor_5.0	11	37,697,000 - 37,698,138	UniSTS	Rnor5.0
RGSC_v3.4	11	34,117,337 - 34,118,475	UniSTS	RGSC3.4
Celera	11	35,236,179 - 35,237,317	UniSTS
Cytogenetic Map	11	q11	UniSTS

Expression

RNA-SEQ Expression

Click on a value in the shaded box below the category label to view a detailed expression data table for that system.

Download All Expressed Objects for this Gene

alimentary part of gastrointestinal system	appendage	circulatory system	ectoderm	endocrine system	endoderm	exocrine system	hemolymphoid system	hepatobiliary system	integumental system	mesenchyme	mesoderm	musculoskeletal system	nervous system	renal system	reproductive system	respiratory system	sensory system	visual system
16	12	67	160	91	90	59	92	59	6	354	191	11	139	80	92	31	17	17

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001024741	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006248044	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_063270417	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XR_005491009	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC097460	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH474083	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000011	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000002299 ⟹ ENSRNOP00000002299

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	11	46,670,642 - 46,690,733 (+)	Ensembl
mRatBN7.2 Ensembl	11	33,200,981 - 33,221,070 (+)	Ensembl
Rnor_6.0 Ensembl	11	34,101,197 - 34,121,378 (+)	Ensembl

Ensembl Acc Id:

ENSRNOT00000148086 ⟹ ENSRNOP00000111253

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	11	46,670,630 - 46,688,585 (+)	Ensembl

RefSeq Acc Id:

NM_001024741 ⟹ NP_001019912

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	11	46,670,650 - 46,690,730 (+)	NCBI
mRatBN7.2	11	33,200,985 - 33,221,067 (+)	NCBI
Rnor_6.0	11	34,101,291 - 34,121,371 (+)	NCBI
Rnor_5.0	11	37,690,476 - 37,710,591 (+)	NCBI
RGSC_v3.4	11	34,110,848 - 34,130,928 (+)	RGD
Celera	11	35,223,726 - 35,243,858 (-)	RGD

Sequence:

show sequence

CGCGCGGGAAGCTGCGGGCAGTGGCGGCTCTGAGTGGACCGAGTCCTAGCAGGGTCGCTGTTGA
ACTCTTTGCTAACATTCCCAGCCTCCCTTTGCCTGGCGGAGACTCTGGAGGATGAAAGTGATCA
CGTGTGAAATCGCCTGGCACAACAAGGAGCCAGTGTACAGCCTTGACTTCCAGCATGCGGCAGC
CTGTAGGATCCAAAGGCTGGCGTCCGCGGGGGTGGACACCGCCGTTAGGATCTGGAAGGTGGAG
AAGGGGCCAGATGGAAAAGCCATTGTGGAATTCCTCTCCAACCTTGCTCGGCACACCAAAGCTG
TCAATGTTGTACGCTTTTCTCCAACTGGGGAGATTTTAGCATCTGGAGGAGACGATGCCGTCAT
CCTGCTGTGGAAGATGAATGACAGCAAGGAGCCGGAGCAGATCGCCTTTCAGGATGAAGATGAG
GCTCAGCTGAACAAGGAGAACTGGACTGTGGTAAAAACCCTGAGGGGCCACTTAGAAGATGTGT
ATGATATATGCTGGGCAACTGATGGGAATATGATGGCCTCTGCTTCTGTGGATAACACAGTTAT
CATATGGGATGTCAGTAAAGGACAGAAGATTTCCATTTTCAACGAGCATAAAAGTTACGTGCAA
GGAGTGACCTGGGATCCTCTGGGTCAATATATCGCGACCCTGAGTTGTGACAGGGTGCTGCGGG
TCTATAGCACCCAGAAGAAACGTGTGGCTTTCAACGTTTCAAAGATGCTCTCTGGACAAGGGCC
CGAAGGAGAGGCGAGAAGTTTCCGGATGTTTCACGATGACAGCATGAAGTCGTTCTTCCGAAGA
CTCAGTTTTACTCCAGATGGATCTTTGCTCCTCACTCCAGCTGGATGTATGGAGTCTGGTGAGA
ATGTGACAAACACCACTTATGTGTTCTCCAGAGAACATCTGAAAAGGCCGATTGCCCACCTTCC
ATGCCCTGGGAAAGCGACCCTTGCTGTCCGATGCTGTCCTGTGTACTTTGAACTGAGGCCAGTG
GCAGAAACAGAGAAAGCGTCAGAGGAGCCCAGCCCCGAGCTGGTGAGTCTGCCCTACCGTATGG
TGTTCGCAGTGGCCTCGGAGGACTCTGTGCTGCTGTATGACACGCAACAGTCTTTCCCATTTGG
TTATGTGTCTAACATCCATTACCATACCCTGAGTGACATTTCCTGGTCCAGCGATGGGGCCTTC
CTGGCTGTGTCCTCCACGGATGGTTATTGCTCATTCGTGACCTTTGAGAAAGGTGAACTAGGCG
TGCCTTTGAAGGAGAAGCCGGTTCTGGGCGTAAGAACTCCTGACACAGCAAAGAAAACCAAGAA
CCAGAACCCCCAGGGATCTTCGCCAGGATCCAGATCAGCCGAAGGAACCCCCAGCAACAGAATC
CAGGACCCCAGCAGCCCCTGTACCACCCCCTCACCAACCACACAGTCTCCAGCCCCGCCCGCCA
TCAAGGACAGTCCCTCAGCCATCCCTGCCGGCAAAAGCCCCTTGCCACGGCCTTCTGAGGAGAA
GACCCTGCAGCCTGCCGCTCAAAACATGAAAGCCCCCCAACCCCGCAGGGTCACACTGAACACG
CTGCAGTCTTGGGGCAAGACGGCCCCCCGGAGAATAAATTTAACACCGTTGAGGGCAGACACTG
CACCAAATCCACTGCCCAGTAGCGGGGCCGCCCCCTCCACAGAAGAGGTCCAGCCAGAGGTGCC
TGGAGAGCCCCAGGATGAGCCTCCCGAACTGAAGAGACCTAAGCTTGAAGAACAGGAAGGAGAC
ACCCAAAGCCTGAGTCCTGATGAGACTTCCAAGTCTGCCTGAGGCCTGCTCGGCTGGGTATCCA
TGTGCAGAGGAGGCCAAAGCTCGAAGGCTGGTGATGGTGATATTAGAGCGGAATAAACACTCGT
GAATTGGTTCACAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

XM_063270417 ⟹ XP_063126487

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	11	46,678,392 - 46,690,739 (+)	NCBI

RefSeq Acc Id:

XR_005491009

Type:

NON-CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	11	46,670,560 - 46,690,558 (+)	NCBI
mRatBN7.2	11	33,200,894 - 33,220,888 (+)	NCBI

Protein Sequences


Protein RefSeqs	NP_001019912	(Get FASTA)	NCBI Sequence Viewer
	XP_063126487	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH97460	(Get FASTA)	NCBI Sequence Viewer
	EDL76730	(Get FASTA)	NCBI Sequence Viewer
	EDL76731	(Get FASTA)	NCBI Sequence Viewer
	EDL76732	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000002299
	ENSRNOP00000002299.4
	ENSRNOP00000111253.1

RefSeq Acc Id:

NP_001019912 ⟸ NM_001024741

- UniProtKB:

Q4V8B4 (UniProtKB/TrEMBL), F7F971 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MKVITCEIAWHNKEPVYSLDFQHAAACRIQRLASAGVDTAVRIWKVEKGPDGKAIVEFLSNLAR
HTKAVNVVRFSPTGEILASGGDDAVILLWKMNDSKEPEQIAFQDEDEAQLNKENWTVVKTLRGH
LEDVYDICWATDGNMMASASVDNTVIIWDVSKGQKISIFNEHKSYVQGVTWDPLGQYIATLSCD
RVLRVYSTQKKRVAFNVSKMLSGQGPEGEARSFRMFHDDSMKSFFRRLSFTPDGSLLLTPAGCM
ESGENVTNTTYVFSREHLKRPIAHLPCPGKATLAVRCCPVYFELRPVAETEKASEEPSPELVSL
PYRMVFAVASEDSVLLYDTQQSFPFGYVSNIHYHTLSDISWSSDGAFLAVSSTDGYCSFVTFEK
GELGVPLKEKPVLGVRTPDTAKKTKNQNPQGSSPGSRSAEGTPSNRIQDPSSPCTTPSPTTQSP
APPAIKDSPSAIPAGKSPLPRPSEEKTLQPAAQNMKAPQPRRVTLNTLQSWGKTAPRRINLTPL
RADTAPNPLPSSGAAPSTEEVQPEVPGEPQDEPPELKRPKLEEQEGDTQSLSPDETSKSA

hide sequence

Ensembl Acc Id:

ENSRNOP00000002299 ⟸ ENSRNOT00000002299

RefSeq Acc Id:	XP_063126487 ⟸ XM_063270417
- Peptide Label:	isoform X1

Ensembl Acc Id:

ENSRNOP00000111253 ⟸ ENSRNOT00000148086

Protein Domains

CAF1B/HIR1 beta-propeller Chromatin assembly factor 1 subunit B C-terminal

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-Q4V8B4-F1-model_v2	AlphaFold	Q4V8B4	1-572	view protein structure

Transcriptome

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

Additional Information

External Database Links

Database	Acc Id	Source(s)
AGR Gene	RGD:1307634	AgrOrtholog
BioCyc Gene	G2FUF-21784	BioCyc
Ensembl Genes	ENSRNOG00000001692	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000002299	ENTREZGENE
	ENSRNOT00000002299.8	UniProtKB/TrEMBL
	ENSRNOT00000148086.1	UniProtKB/TrEMBL
Gene3D-CATH	2.130.10.10	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7457454	IMAGE-MGC_LOAD
InterPro	CAF1_p60_C	UniProtKB/TrEMBL
	CAF1B_HIR1_beta-prop	UniProtKB/TrEMBL
	Gprotein_B	UniProtKB/TrEMBL
	PTHR15271	UniProtKB/TrEMBL
	WD40/YVTN_repeat-like_dom_sf	UniProtKB/TrEMBL
	WD40_repeat	UniProtKB/TrEMBL
	WD40_repeat_CS	UniProtKB/TrEMBL
	WD40_repeat_dom_sf	UniProtKB/TrEMBL
KEGG Report	rno:288242	UniProtKB/TrEMBL
MGC_CLONE	MGC:114524	IMAGE-MGC_LOAD
NCBI Gene	288242	ENTREZGENE
PANTHER	CHROMATIN ASSEMBLY FACTOR 1 SUBUNIT B	UniProtKB/TrEMBL
	PTHR15271	UniProtKB/TrEMBL
Pfam	Beta-prop_CAF1B_HIR1	UniProtKB/TrEMBL
	CAF-1_p60_C	UniProtKB/TrEMBL
PhenoGen	Chaf1b	PhenoGen
PRINTS	GPROTEINB	UniProtKB/TrEMBL
PROSITE	WD_REPEATS_1	UniProtKB/TrEMBL
	WD_REPEATS_2	UniProtKB/TrEMBL
	WD_REPEATS_REGION	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000001692	RatGTEx
SMART	WD40	UniProtKB/TrEMBL
Superfamily-SCOP	WD40_like	UniProtKB/TrEMBL
UniProt	A0ABK0LXF7_RAT	UniProtKB/TrEMBL
	F7F971	ENTREZGENE, UniProtKB/TrEMBL
	Q4V8B4	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2015-12-02	Chaf1b	chromatin assembly factor 1 subunit B	Chaf1b	chromatin assembly factor 1, subunit B (p60)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2005-12-06	Chaf1b	chromatin assembly factor 1, subunit B (p60)	Chaf1b_predicted	chromatin assembly factor 1, subunit B (p60) (predicted)	Symbol and Name updated	1559027	APPROVED
2005-01-12	Chaf1b_predicted	chromatin assembly factor 1, subunit B (p60) (predicted)			Symbol and Name status set to approved	70820	APPROVED

Gene Annotator (Functional Annotation) unavailable	Gene Annotator (Annotation Distribution) unavailable	Variant Visualizer (Genomic Variants) unavailble Variant Visualizer (Genomic Variants) unavailable
Gene Annotator (Functional Annotation)	Gene Annotator (Annotation Distribution)	Variant Visualizer (Genomic Variants)

InterViewer (Protein-Protein Interactions) unavailable	Gviewer (Genome Viewer) unavailable	Variant Visualizer (Damaging Variants) unavailble Variant Visualizer (Damaging Variants) unavailable
InterViewer (Protein-Protein Interactions)	GViewer (Genome Viewer)	Variant Visualizer (Damaging Variants)

Gene Annotator (Annotation Comparison) unavailable	OLGA (Gene List Generator) unavailable
Gene Annotator (Annotation Comparison)	OLGA (Gene List Generator)	Excel (Download)

MOET (Multi-Ontology Enrichement) unavailable	GOLF (Gene-Ortholog Location Finder) unavailable
MOET (Multi-Ontology Enrichement)	GOLF (Gene-Ortholog Location Finder)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations

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Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

RGD Manual Annotations