Ddx56 (DEAD-box helicase 56) - Rat Genome Database

Name: Ddx56
Creator: Rat Genome Database
License: Creative Commons CC BY 4.0
Keywords: Rat Gene RGD Genome

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Gene: Ddx56 (DEAD-box helicase 56) Rattus norvegicus

Analyze

Symbol:

Ddx56

Name:

DEAD-box helicase 56

RGD ID:

1303195

Description:

Predicted to enable RNA stem-loop binding activity and protein sequestering activity. Involved in positive regulation of neuron projection development. Predicted to be located in cytosol. Predicted to be active in nucleolus. Orthologous to human DDX56 (DEAD-box helicase 56); PARTICIPATES IN ribosome biogenesis pathway; INTERACTS WITH (+)-schisandrin B; 2,3,7,8-tetrachlorodibenzodioxine; 2,4-dinitrotoluene.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

Ddx21; DEAD (Asp-Glu-Ala-Asp) box helicase 56; DEAD (Asp-Glu-Ala-Asp) box polypeptide 56; LOC100911468; LOC103693777; MGC93697; probable ATP-dependent RNA helicase DDX56; probable ATP-dependent RNA helicase DDX56-like; RH-II/Gu; RNA helicase II/Gu; uncharacterized LOC103693777

RGD Orthologs

Alliance Genes

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):	DDX56 (DEAD-box helicase 56)	HGNC	Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther, Treefam
Mus musculus (house mouse):	Ddx56 (DEAD box helicase 56)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Ddx56 (DEAD-box helicase 56)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	DDX56 (DEAD-box helicase 56)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	DDX56 (DEAD-box helicase 56)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Ddx56 (DEAD-box helicase 56)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	DDX56 (DEAD-box helicase 56)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	DDX56 (DEAD-box helicase 56)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Ddx56 (DEAD-box helicase 56)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	TRMT1L (tRNA methyltransferase 1 like)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	DDX56 (DEAD-box helicase 56)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Ddx56 (DEAD box helicase 56)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	ddx56 (DEAD (Asp-Glu-Ala-Asp) box helicase 56)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Saccharomyces cerevisiae (baker's yeast):	DBP9	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	C24H12.4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	Hlc	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Xenopus tropicalis (tropical clawed frog):	ddx56	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)

Latest Assembly:

mRatBN7.2 - mRatBN7.2 Assembly

Position:

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	14	81,112,008 - 81,122,331 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	14	81,112,012 - 81,122,333 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	14	85,514,842 - 85,523,286 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	14	86,754,924 - 86,763,369 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	14	83,204,251 - 83,212,695 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	14	86,378,937 - 86,387,637 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	86,376,808 - 86,387,608 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	14	87,340,363 - 87,348,821 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	86,985,893 - 86,994,552 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	14	87,005,037 - 87,013,697 (-)	NCBI
Celera	14	79,996,639 - 80,005,265 (-)	NCBI		Celera
Cytogenetic Map	14	q21	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

genetic disease (ISO)

pleomorphic xanthoastrocytoma (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(+)-schisandrin B (EXP)

1,2-dimethylhydrazine (ISO)

1-chloro-2,4-dinitrobenzene (ISO)

17alpha-ethynylestradiol (ISO)

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

2,3,7,8-Tetrachlorodibenzofuran (ISO)

2,4-dinitrotoluene (EXP)

2,6-dinitrotoluene (EXP)

acrolein (ISO)

acrylamide (ISO)

aflatoxin B1 (ISO)

alpha-pinene (ISO)

amphetamine (EXP)

aristolochic acid A (ISO)

benzo[a]pyrene (ISO)

bisphenol A (EXP)

choline (ISO)

clofibric acid (EXP)

cobalt dichloride (ISO)

copper atom (ISO)

copper(0) (ISO)

coumestrol (ISO)

Cuprizon (EXP)

cyclosporin A (ISO)

dibutyl phthalate (ISO)

dioxygen (ISO)

endosulfan (EXP)

flutamide (EXP)

folic acid (ISO)

fulvestrant (ISO)

hydrogen peroxide (ISO)

ivermectin (ISO)

L-methionine (ISO)

N-nitrosodiethylamine (EXP)

nefazodone (EXP)

ozone (ISO)

paracetamol (ISO)

pirinixic acid (ISO)

sunitinib (ISO)

T-2 toxin (ISO)

tamoxifen (ISO)

tert-butyl hydroperoxide (ISO)

tetrachloromethane (EXP)

urethane (ISO)

valproic acid (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

defense response to virus (ISO)

modulation by host of viral RNA genome replication (ISO)

negative regulation of type I interferon production (ISO)

positive regulation of neuron projection development (IMP)

Cellular Component

cytosol (ISO)

nucleolus (IBA,ISO)

nucleus (ISO)

Molecular Function

ATP binding (IEA)

hydrolase activity (IEA)

protein binding (ISO)

protein sequestering activity (ISO)

RNA helicase activity (IEA)

RNA stem-loop binding (ISO)

Molecular Pathway Annotations Click to see Annotation Detail View

ribosome biogenesis pathway (ISO)

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.	Rat ISS GO annotations from GOA human gene data--August 2006	GOA data from the GO Consortium
3.	Silencing of RNA helicase II/Gualpha inhibits mammalian ribosomal RNA production.	Henning D, etal., J Biol Chem 2003 Dec 26;278(52):52307-14. Epub 2003 Oct 13.
4.	DExD/H-box RNA helicases in ribosome biogenesis.	Martin R, etal., RNA Biol. 2013 Jan;10(1):4-18. doi: 10.4161/rna.21879. Epub 2012 Aug 24.
5.	Rat ISS GO annotations from MGI mouse gene data--August 2006	MGD data from the GO Consortium
6.	GOA pipeline	RGD automated data pipeline
7.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
8.	Comprehensive gene review and curation	RGD comprehensive gene curation
9.	Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences.	Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
10.	The DEXD/H-box RNA helicase RHII/Gu is a co-factor for c-Jun-activated transcription.	Westermarck J, etal., EMBO J. 2002 Feb 1;21(3):451-60.

Additional References at PubMed

PMID:2506639	PMID:19946888	PMID:22658674

Genomics

Comparative Map Data

Ddx56
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	14	81,112,008 - 81,122,331 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	14	81,112,012 - 81,122,333 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	14	85,514,842 - 85,523,286 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	14	86,754,924 - 86,763,369 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	14	83,204,251 - 83,212,695 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	14	86,378,937 - 86,387,637 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	14	86,376,808 - 86,387,608 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	14	87,340,363 - 87,348,821 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	14	86,985,893 - 86,994,552 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	14	87,005,037 - 87,013,697 (-)	NCBI
Celera	14	79,996,639 - 80,005,265 (-)	NCBI		Celera
Cytogenetic Map	14	q21	NCBI

DDX56
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	7	44,565,804 - 44,573,908 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	7	44,565,804 - 44,575,051 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	7	44,605,403 - 44,613,507 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	7	44,571,928 - 44,580,662 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	7	44,378,643 - 44,387,377	NCBI
Celera	7	44,704,249 - 44,712,982 (-)	NCBI		Celera
Cytogenetic Map	7	p13	NCBI
HuRef	7	44,489,391 - 44,498,512 (-)	NCBI		HuRef
CHM1_1	7	44,609,414 - 44,618,534 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	7	44,725,568 - 44,733,672 (-)	NCBI		T2T-CHM13v2.0
CRA_TCAGchr7v2	7	44,644,536 - 44,653,656 (-)	NCBI

Ddx56
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	11	6,205,343 - 6,218,389 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	11	6,208,919 - 6,217,772 (-)	Ensembl		GRCm39 Ensembl
GRCm38	11	6,257,545 - 6,269,786 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	11	6,258,919 - 6,267,772 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	11	6,157,548 - 6,167,732 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	11	6,157,548 - 6,167,732 (-)	NCBI		MGSCv36	mm8
Celera	11	6,739,487 - 6,749,670 (-)	NCBI		Celera
Cytogenetic Map	11	A1	NCBI
cM Map	11	3.94	NCBI

Ddx56
(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_004955456	7,505,260 - 7,513,424 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955456	7,505,260 - 7,513,225 (+)	NCBI	ChiLan1.0	ChiLan1.0

DDX56
(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	7	97,803,015 - 97,811,480 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	7	45,280,188 - 45,289,476 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	7	45,349,215 - 45,358,400 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	7	45,349,800 - 45,357,694 (-)	Ensembl	panpan1.1		panPan2

DDX56
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Dog10K_Boxer_Tasha	16	2,347,436 - 2,354,160 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	16	14,507,408 - 14,514,132 (+)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	16	14,503,778 - 14,516,659 (+)	Ensembl		ROS_Cfam_1.0 Ensembl
UNSW_CanFamBas_1.0	16	14,138,895 - 14,145,619 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	16	14,119,509 - 14,126,349 (+)	NCBI		UU_Cfam_GSD_1.0

Ddx56
(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_024405118	100,253,977 - 100,265,130 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936478	19,461,919 - 19,476,691 (-)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936478	19,463,559 - 19,476,565 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

DDX56
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	18	50,705,632 - 50,715,033 (+)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	18	50,705,613 - 50,714,967 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	18	55,608,920 - 55,618,273 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

DDX56
(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	21	14,096,653 - 14,112,132 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	21	14,104,060 - 14,114,645 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666062	8,423,176 - 8,431,281 (-)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Ddx56
(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_004624740	7,563,709 - 7,572,221 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624740	7,563,932 - 7,575,700 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Ddx56
75 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	54
Count of miRNA genes:	50
Interacting mature miRNAs:	54
Transcripts:	ENSRNOT00000006642
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.

QTLs in Region (mRatBN7.2)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631839	Niddm37	Non-insulin dependent diabetes mellitus QTL 37	3.37		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	11030622	95876975	Rat
2313048	Bss84	Bone structure and strength QTL 84	3.1	0.0001	tibia strength trait (VT:1000284)	tibia total energy absorbed before break (CMO:0001736)	14	37669719	82669719	Rat
2313084	Bss83	Bone structure and strength QTL 83	2.9	0.0001	tibia size trait (VT:0100001)	tibia midshaft endosteal cross-sectional area (CMO:0001716)	14	37669719	82669719	Rat
2313089	Bss81	Bone structure and strength QTL 81	3.4	0.0001	body length (VT:0001256)	body length, nose to rump (CMO:0000079)	14	37669719	82669719	Rat
2313100	Bss82	Bone structure and strength QTL 82	3	0.0001	tibia size trait (VT:0100001)	tibia midshaft cross-sectional area (CMO:0001717)	14	37669719	82669719	Rat
738037	Hcas6	Hepatocarcinoma susceptibility QTL 6	2.93		liver integrity trait (VT:0010547)	liver nonremodeling tumorous lesion volume to total liver volume ratio (CMO:0001464)	14	39057237	83368335	Rat
631523	Pia13	Pristane induced arthritis QTL 13	3.3		joint integrity trait (VT:0010548)	joint inflammation composite score (CMO:0000919)	14	40793460	98037301	Rat
1300136	Rf22	Renal function QTL 22	3.9		renal blood flow trait (VT:2000006)	absolute change in renal vascular resistance (CMO:0001900)	14	42262529	95023211	Rat
1549834	Scl45	Serum cholesterol level QTL 45	5.8		blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	14	50023211	95023211	Rat
2300197	Scl59	Serum cholesterol level QTL 59			blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	14	55147478	100147478	Rat
9590294	Uminl4	Urine mineral level QTL 4	5.66	0.001	urine mineral amount (VT:0015086)	urine electrolyte level (CMO:0000593)	14	55624247	100624247	Rat
9589034	Epfw11	Epididymal fat weight QTL 11	6	0.001	epididymal fat pad mass (VT:0010421)	epididymal fat pad weight to body weight ratio (CMO:0000658)	14	55624247	100624247	Rat
2317879	Alcrsp27	Alcohol response QTL 27	3.3	0.63	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	14	56631369	101631369	Rat
634328	Hc5	Hypercalciuria QTL 5	2.3		urine calcium amount (VT:0002985)	urine calcium excretion rate (CMO:0000763)	14	58184885	103184885	Rat
70153	Bp59	Blood pressure QTL 59	3.2		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	14	68757796	83368335	Rat
1582259	Gluco23	Glucose level QTL 23	3.1	0.0008	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	70053989	104886043	Rat
1641900	Alcrsp11	Alcohol response QTL 11			alcohol metabolism trait (VT:0015089)	blood ethanol level (CMO:0000535)	14	70053989	104886043	Rat
1582197	Gluco27	Glucose level QTL 27	3.4	0.0006	blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	14	73415323	92554092	Rat
1582209	Gluco20	Glucose level QTL 20	3.8	0.0005	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	73415323	92554092	Rat
1582236	Gluco22	Glucose level QTL 22	3.3	0.0164	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	73415323	92554092	Rat
1582255	Gluco29	Glucose level QTL 29	3.1	0.0025	blood glucose amount (VT:0000188)	absolute change in blood glucose level area under curve (CMO:0002034)	14	73415323	92554092	Rat
1582250	Gluco26	Glucose level QTL 26	3.3	0.0009	blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	14	73415323	95876975	Rat
631213	Bw60	Body weight QTL60	4.51		retroperitoneal fat pad mass (VT:0010430)	retroperitoneal fat pad weight to body weight ratio (CMO:0000635)	14	79950921	95876975	Rat

Markers in Region

AA926226

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	14	81,113,695 - 81,113,899 (+)	MAPPER	mRatBN7.2
Rnor_6.0	14	86,379,030 - 86,379,233	NCBI	Rnor6.0
Rnor_6.0	14	86,376,914 - 86,377,117	NCBI	Rnor6.0
Rnor_5.0	14	87,340,456 - 87,340,659	UniSTS	Rnor5.0
Rnor_5.0	14	87,338,340 - 87,338,543	UniSTS	Rnor5.0
RGSC_v3.4	14	86,985,913 - 86,986,116	UniSTS	RGSC3.4
Celera	14	79,996,659 - 79,996,862	UniSTS
RH 3.4 Map	14	577.4	UniSTS
Cytogenetic Map	14	q21	UniSTS

BM386234

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	14	81,115,811 - 81,116,000 (+)	MAPPER	mRatBN7.2
Rnor_6.0	14	86,381,090 - 86,381,278	NCBI	Rnor6.0
Rnor_5.0	14	87,342,275 - 87,342,463	UniSTS	Rnor5.0
RGSC_v3.4	14	86,988,034 - 86,988,222	UniSTS	RGSC3.4
Celera	14	79,998,746 - 79,998,934	UniSTS
RH 3.4 Map	14	580.0	UniSTS
Cytogenetic Map	14	q21	UniSTS

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	22	43	30	19	30			65	25	38	11
Low		21	14	11		11	8	11	9	10	3		8
Below cutoff

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001004211	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	NM_001414989	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	BC078919	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	CH473963	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	FQ212430	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000254	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000006642 ⟹ ENSRNOP00000006642

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
Rnor_6.0 Ensembl	14	86,379,010 - 86,387,608 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000089384 ⟹ ENSRNOP00000071407

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	14	81,112,012 - 81,122,333 (-)	Ensembl
Rnor_6.0 Ensembl	14	86,376,808 - 86,387,606 (-)	Ensembl

RefSeq Acc Id:

NM_001004211 ⟹ NP_001004211

RefSeq Status:

PROVISIONAL

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	81,113,676 - 81,122,330 (-)	NCBI
Rnor_6.0	14	86,379,010 - 86,387,608 (-)	NCBI
Rnor_5.0	14	87,340,363 - 87,348,821 (-)	NCBI
RGSC_v3.4	14	86,985,893 - 86,994,552 (-)	RGD
Celera	14	79,996,639 - 80,005,265 (-)	RGD

Sequence:

show sequence

CTGTCAGCGTGGAAGTCACGCCATGGAGGACCAAGAAGCGCTGGGTTTTGAACACATGGGGCTG
GATCCCCGGCTCCTGCAGGTATGGGGAAGGCTGTGGAGCTGGGACCTGGCGTGCTGCTGTCCTC
CGCGCCGCTTGAGTCGCATCCTCTTCCTTCTTAGGCTGTCACCGACTTGGGCTGGTCACGACCT
ACGCTAATCCAGGAAAAAGCCATACCTCTGGCGCTGGAGGGGAAGGACCTCCTGGCCCGCGCCC
GCACAGGCTCCGGGAAGACCGCAGCTTATGCTATTCCGATGCTGCAGTTGCTTCTCCACAAGAA
GGCGACAGGTCCCGTAATGGAACAAGCTGTGAGGGGCCTTGTCCTTGTTCCTACTAAGGAGCTG
GCAAGGCAGGCCCAGTCCATGATCCAGCAGCTGGCCTCCTACTGTGCTCGCGATGTGAGAGTGG
CTAATGTCTCAGCCGCTGAAGACTCAGCTTCTCAGAGAGCTGTGTTGATGGAGAAGCCCGATGT
GGTGGTGGGGACCCCATCCCGGATATTAAACCACTTGCAGCAGAAAAACTTGAAACTCCGGGAC
TCTCTGGAGCTGCTGGTAGTGGACGAAGCTGACCTTCTTTTTTCCTTTGGCTTTGAGGATGAAC
TCAAGAGTCTTCTCTGTCACTTGCCTCGGATTTACCAGGCTTTTCTCATGTCGGCCACTTTCAA
TGAGGATGTGCAAACCCTGAAGGAGCTAGTGCTACATAACCCGGTTACTCTCAAGTTACAGGAG
TCCCAGCTGCCGGGGCCAGATCAGCTCCAGCAGTTTCAGGTGGTCTGTGAGACTGAGGAAGACA
AGTTCTTGCTGCTGTACGCTCTGCTCAAGCTGTCCCTGATCCGGGGCAAAGCGCTTCTCTTTGT
CAACACTCTAGAGAGAGGTTACCGGCTCCGTCTTTTCCTGGAGCAGTTCAGCATTCCCTCCTGC
GTGCTCAATGGAGAACTCCCACTGCGCTCCAGGTGCCACATCATCTCACAGTTCAACCAAGGCT
TGTATGATTGCGTCATAGCCACAGACGCAGAAATCCTGGGACCCCAAGTCAAAGCCAAGCGGCA
AGGCCGCGGGTCCAAAGGAGACAAGGCATCTGATCCTGAGTCAGGTGTGGCCCGGGGCATAGAC
TTCCACCATGTGTCTGCCGTCCTGAATTTTGACCTTCCTCCCACTGCAGAAGCCTATGTCCACC
GAGCTGGCAGGACAGCTCGAGCCAACAACCCAGGCATAGTTCTGACCTTCGTGCTGCCCACGGA
ACAGTCTTCTTTGGGAAAGATTGAGGAGCTTCTCAGTGGAGAGGGCCAGGCCCCCATCCTGCTT
CCCTACCAGTTCCAGATGGAGGAGATTGAAAGCTTTCGCTATCGATGCAGGGATGCCATGCGCT
CCGTGACGAAGCAGGCCATTCGAGAGGCAAGGCTGAAGGAGATCAAGGAGGAGCTTCTGCACTC
AGAGAAGCTCAAGACATACTTTGAAGACAACCCCAGGGACCTCCAGCTGCTACGCCATGATCTG
CCCTTGCACCCGGCAGTGGTGAAGCCTCATTTGGGCAATGTCCCCGACTACTTGGTTCCTGCCG
CTCTTCGTGGCCTTGTACATCCTCGAAAGAAACGGAGAAAGATGCCCTTCTCTAGAAAGGCTAA
GAAGGTGAAGACCCAGAACCCACTGCGTGACTTCAAGCACAGGGGGAAGAAGCCTAAACCCACA
GCAAAGCCTTCTTGAGGTTGCCTGAGCCTGGGGACACTGAATTGGGCATCCTGGCCTGTGTGGA
CTGGGCTGCCCACTCCTTGTGGGCACATTCTGGTGCTTGCTGTTTGGACAGACTACTTTGAGGA
AGCAGCTTTGGACACCCCGTCACCTTGGCACTGCTGGGCTGCCATGTTGTCCGTTAGCAGAATA
AAGATTCCGTCTGCTCCAGAAAAAAAAAAAAAAAAAAAAAAAAAAA

hide sequence

RefSeq Acc Id:

NM_001414989 ⟹ NP_001401918

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	14	81,112,008 - 81,122,331 (-)	NCBI

Protein Sequences


Protein RefSeqs	NP_001004211	(Get FASTA)	NCBI Sequence Viewer
	NP_001401918	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	AAH78919	(Get FASTA)	NCBI Sequence Viewer
	EDM00337	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:	NP_001004211 ⟸ NM_001004211
- Peptide Label:	isoform 1
- UniProtKB:	Q6AYT6 (UniProtKB/TrEMBL), G3V6M5 (UniProtKB/TrEMBL)
- Sequence:	show sequence MLQLLLHKKATGPVMEQAVRGLVLVPTKELARQAQSMIQQLASYCARDVRVANVSAAEDSASQR AVLMEKPDVVVGTPSRILNHLQQKNLKLRDSLELLVVDEADLLFSFGFEDELKSLLCHLPRIYQ AFLMSATFNEDVQTLKELVLHNPVTLKLQESQLPGPDQLQQFQVVCETEEDKFLLLYALLKLSL IRGKALLFVNTLERGYRLRLFLEQFSIPSCVLNGELPLRSRCHIISQFNQGLYDCVIATDAEIL GPQVKAKRQGRGSKGDKASDPESGVARGIDFHHVSAVLNFDLPPTAEAYVHRAGRTARANNPGI VLTFVLPTEQSSLGKIEELLSGEGQAPILLPYQFQMEEIESFRYRCRDAMRSVTKQAIREARLK EIKEELLHSEKLKTYFEDNPRDLQLLRHDLPLHPAVVKPHLGNVPDYLVPAALRGLVHPRKKRR KMPFSRKAKKVKTQNPLRDFKHRGKKPKPTAKPS hide sequence

RefSeq Acc Id:

ENSRNOP00000006642 ⟸ ENSRNOT00000006642

RefSeq Acc Id:

ENSRNOP00000071407 ⟸ ENSRNOT00000089384

RefSeq Acc Id:	NP_001401918 ⟸ NM_001414989
- Peptide Label:	isoform 2
- UniProtKB:	A0A0G2K0E0 (UniProtKB/TrEMBL), A6IKS3 (UniProtKB/TrEMBL)

Protein Domains

DEAD-box RNA helicase Q Helicase ATP-binding Helicase C-terminal

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-A0A0G2K0E0-F1-model_v2	AlphaFold	A0A0G2K0E0	1-546	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:1303195	AgrOrtholog
BioCyc Gene	G2FUF-15100	BioCyc
Ensembl Genes	ENSRNOG00000004670	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000071407	ENTREZGENE
	ENSRNOP00000071407.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000089384	ENTREZGENE
	ENSRNOT00000089384.2	UniProtKB/TrEMBL
Gene3D-CATH	3.40.50.300	UniProtKB/TrEMBL
IMAGE_CLONE	IMAGE:7096512	IMAGE-MGC_LOAD
InterPro	DEAD-like_helicase	UniProtKB/TrEMBL
	DNA/RNA_helicase_DEAD/DEAH_N	UniProtKB/TrEMBL
	Helicase_C	UniProtKB/TrEMBL
	P-loop_NTPase	UniProtKB/TrEMBL
	RNA_helicase_DEAD_Q_motif	UniProtKB/TrEMBL
KEGG Report	rno:289780	UniProtKB/TrEMBL
MGC_CLONE	MGC:93697	IMAGE-MGC_LOAD
NCBI Gene	289780	ENTREZGENE
PANTHER	ATP-DEPENDENT RNA HELICASE DDX56-RELATED	UniProtKB/TrEMBL
	RNA HELICASE	UniProtKB/TrEMBL
Pfam	DEAD	UniProtKB/TrEMBL
	Helicase_C	UniProtKB/TrEMBL
PhenoGen	Ddx56	PhenoGen
PROSITE	HELICASE_ATP_BIND_1	UniProtKB/TrEMBL
	HELICASE_CTER	UniProtKB/TrEMBL
	Q_MOTIF	UniProtKB/TrEMBL
SMART	DEXDc	UniProtKB/TrEMBL
	HELICc	UniProtKB/TrEMBL
Superfamily-SCOP	SSF52540	UniProtKB/TrEMBL
UniProt	A0A0G2K0E0	ENTREZGENE, UniProtKB/TrEMBL
	A6IKS3	ENTREZGENE, UniProtKB/TrEMBL
	G3V6M5	ENTREZGENE
	Q6AYT6	ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary	G3V6M5	UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2021-03-09	Ddx56	DEAD-box helicase 56	LOC103693777	uncharacterized LOC103693777	Data Merged	737654	PROVISIONAL
2016-01-13	Ddx56	DEAD-box helicase 56	Ddx56	DEAD (Asp-Glu-Ala-Asp) box helicase 56	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2015-07-29	LOC103693777	uncharacterized LOC103693777	LOC100911468	probable ATP-dependent RNA helicase DDX56-like	Data Merged	737654	PROVISIONAL
2014-08-25	LOC103693777	uncharacterized LOC103693777			Symbol and Name status set to provisional	70820	PROVISIONAL
2012-07-16	Ddx56	DEAD (Asp-Glu-Ala-Asp) box helicase 56	Ddx56	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2012-07-05	LOC100911468	probable ATP-dependent RNA helicase DDX56-like			Symbol and Name status set to provisional	70820	PROVISIONAL
2006-03-30	Ddx56	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56			Symbol and Name status set to approved	1299863	APPROVED
2005-07-14	Ddx56	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56			Symbol and Name status set to provisional	70820	PROVISIONAL

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)

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