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Gene: Arhgef39 (Rho guanine nucleotide exchange factor 39) Chinchilla lanigera

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Symbol:

Arhgef39

Name:

Rho guanine nucleotide exchange factor 39

RGD ID:

8983913

Description:

INVOLVED IN positive regulation of cell migration (ortholog); ASSOCIATED WITH acromesomelic dysplasia, Maroteaux type (ortholog); anauxetic dysplasia (ortholog); autosomal recessive distal hereditary motor neuronopathy 2 (ortholog); FOUND IN plasma membrane (ortholog)

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

Rho guanine nucleotide exchange factor (GEF) 39

RGD Orthologs

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 Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955472	633,405 - 640,305 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955472	633,474 - 636,440 (+)	NCBI	ChiLan1.0	ChiLan1.0

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

acromesomelic dysplasia, Maroteaux type (ISO)

anauxetic dysplasia (ISO)

autosomal recessive distal hereditary motor neuronopathy 2 (ISO)

distal arthrogryposis type 1A (ISO)

frontotemporal dementia and/or amyotrophic lateral sclerosis 6 (ISO)

galactosemia (ISO)

hepatocellular carcinoma (ISO)

hyperphosphatasia with impaired intellectual development syndrome 2 (ISO)

paraplegia (ISO)

primary ciliary dyskinesia (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

positive regulation of cell migration (ISO)

Cellular Component

plasma membrane (ISO)

Molecular Function

protein binding (ISO)

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

Arhgef39
(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_004955472	633,405 - 640,305 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955472	633,474 - 636,440 (+)	NCBI	ChiLan1.0	ChiLan1.0

ARHGEF39
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	9	35,659,343 - 35,665,195 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	9	35,658,875 - 35,675,866 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	9	35,659,340 - 35,665,192 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	9	35,649,341 - 35,655,278 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	9	35,648,873 - 35,655,189	NCBI
Celera	9	35,592,890 - 35,598,827 (-)	NCBI		Celera
Cytogenetic Map	9	p13.3	NCBI
HuRef	9	35,614,950 - 35,620,887 (-)	NCBI		HuRef
CHM1_1	9	35,659,169 - 35,665,106 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	9	35,679,995 - 35,685,847 (-)	NCBI		T2T-CHM13v2.0

Arhgef39
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	4	43,496,139 - 43,508,747 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	4	43,496,142 - 43,499,695 (-)	Ensembl		GRCm39 Ensembl
GRCm38	4	43,496,139 - 43,508,747 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	4	43,496,142 - 43,499,695 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	4	43,509,014 - 43,512,532 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	4	43,517,242 - 43,520,730 (-)	NCBI		MGSCv36	mm8
Celera	4	43,530,162 - 43,533,680 (-)	NCBI		Celera
Cytogenetic Map	4	A5	NCBI
cM Map	4	23.04	NCBI

Arhgef39
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	5	62,548,300 - 62,551,870 (-)	NCBI		GRCr8
mRatBN7.2	5	57,752,509 - 57,756,079 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	5	57,752,509 - 57,756,109 (-)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	5	59,732,391 - 59,735,965 (-)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	5	61,551,204 - 61,554,778 (-)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	5	61,522,655 - 61,526,213 (-)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	5	58,998,209 - 59,001,779 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	5	58,995,249 - 59,001,800 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	5	63,522,803 - 63,526,373 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	5	59,977,497 - 59,979,258 (-)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	5	59,976,596 - 59,979,421 (-)	NCBI
Celera	5	56,333,084 - 56,336,654 (-)	NCBI		Celera
Cytogenetic Map	5	q22	NCBI

ARHGEF39
(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	11	88,920,738 - 88,928,473 (+)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	9	88,926,669 - 88,934,538 (+)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	9	35,510,876 - 35,517,299 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	9	36,313,296 - 36,319,732 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	9	36,313,296 - 36,319,732 (-)	Ensembl	panpan1.1		panPan2

ARHGEF39
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	11	52,191,170 - 52,200,769 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	11	52,196,462 - 52,200,778 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	11	50,765,489 - 50,768,556 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	11	53,256,556 - 53,265,956 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	11	53,261,492 - 53,271,849 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	11	51,807,441 - 51,810,506 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	11	51,790,921 - 51,793,983 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	11	52,493,055 - 52,496,124 (-)	NCBI		UU_Cfam_GSD_1.0

Arhgef39
(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_024404947	167,110,767 - 167,126,613 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936524	3,660,454 - 3,663,696 (-)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936524	3,660,364 - 3,663,664 (-)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

ARHGEF39
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	1	236,383,925 - 236,387,667 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	1	236,383,684 - 236,387,705 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	1	264,108,957 - 264,120,992 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

ARHGEF39
(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	12	44,937,488 - 44,941,708 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	12	44,937,923 - 44,944,842 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666038	42,042,641 - 42,047,396 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Arhgef39
(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_004624868	5,126,781 - 5,130,320 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624868	5,126,041 - 5,130,696 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

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.

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_013523038	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01053344	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBBH01162941	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDJ01123704	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSCLAT00000003742 ⟹ ENSCLAP00000003668

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955472	633,405 - 640,305 (+)	Ensembl

RefSeq Acc Id:

XM_013523038 ⟹ XP_013378492

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955472	633,474 - 636,440 (+)	NCBI

Sequence:

show sequence

CGGCGGGCCGCGCCGCAGCCGTCGGGGCCTCGGTCAGGCAATGGCGAGCCCCGGCCCCGGCGCG
CGGTGCCCGCTGCTGGAGCAGCGTGCTCGGTGGGAGCGGAAACGCGCCTGCACCGCCCGGGAGC
TGCTGGAGACCGAGCGGCGCTACCAGGAGCAGCTGGGGCTGGTGGCCACGTACTTCCTGGGGAT
CCTGAAAGCCAAGGGGAGCCTGCGACCTGCAGAGCGCCAGTCTCTGTTTGGGTGCTGGGAGCTC
ATCTACGGCGCCAGCCAAGAGCTGCTTCCCTGCTTGGAAGAAGGGCGCTGGGGACAAGGGCTAG
AAGGCTTCTGCACGCACCTGGAGCTCTACACCCAGTTCGCTGCCAATGCAGAGAGGTCCCAGGC
CACGCTCCAGGAGCAGCTAAAGAAAAACAAGCGTTTTCGGAGGTTTGTGAGGCTTCAGGAAGGC
CGCCCTCAGTTTGGAGGCCTTCAGCTGCAGGACCTGCTGCCTCTGCCTCTGCAGCGGCTCCAGC
AGTATGAGAATCTCGTTGTTGCTTTGGCTGAAAACACAGGTCCCAACAGCCCTGACCACCGACA
GCTCACACGGGCTGCCCGACTGATAAGCGAGACTGCCCAGAGAGTGCACACCATTGGTGAGAAA
CAGAAGAATGACCAGCACCTTCAGCGTGTCCAGGCCTTGCTCAGTGGACGCCAGGCAAAGGGGC
TCACCTCAGGTCGCTGGTTCCTACACCAGGGCTGGCTGTTGGTGGTGCCTCCTGCTGGGGAGCC
TCGGCCCCGAATGTTTTTCCTCTTCTCTGATGTGCTTGTCATGGCCAAGCCCCGGCCCCCATTG
CATCTGCTAAAGAGTGGCACCTTTGCCTGCAGGGCCCTCTACCCCATGGCCCAGTGTCAGCTCT
GCAGGGTCTTTGGTCACTCGGGAGGTCCCTGTGGGGGACTGCTCAGCCTGTCCTTCCCCAGTGA
GAAGCTACTGCTTATGTCCACAGACCAGGAGGAACTGTCACACTGGTACCAGAGTCTGACACTG
GCTATTAGCAGCCAGAACTAGAAGAACCTACAAATTCTAAAATTCAAGACACTTCAGGGATAGG
TCAAAGCCAAGAGTACAAAAGGATCTTCTAACAAAGTGAGAATTTCTCACGACCTTTCATAGTT
TAACAAGGCTCATTTTGTGTTTAGCAAGCTACTCTGGGTCATCAGACCAGCTCTTAAGAATTAC
AAAACCAGGCAGGCATGATGGTACACACCTGTAATCCCAGCACTTGGGAGGCTGAGGCAGGAGG
ATCACTGTGAGTTCAAGGCCAG

hide sequence

Protein Sequences


Protein RefSeqs	XP_013378492	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000003668
	ENSCLAP00000003668.1

RefSeq Acc Id:

XP_013378492 ⟸ XM_013523038

- UniProtKB:

A0A8C2UNX4 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MASPGPGARCPLLEQRARWERKRACTARELLETERRYQEQLGLVATYFLGILKAKGSLRPAERQ
SLFGCWELIYGASQELLPCLEEGRWGQGLEGFCTHLELYTQFAANAERSQATLQEQLKKNKRFR
RFVRLQEGRPQFGGLQLQDLLPLPLQRLQQYENLVVALAENTGPNSPDHRQLTRAARLISETAQ
RVHTIGEKQKNDQHLQRVQALLSGRQAKGLTSGRWFLHQGWLLVVPPAGEPRPRMFFLFSDVLV
MAKPRPPLHLLKSGTFACRALYPMAQCQLCRVFGHSGGPCGGLLSLSFPSEKLLLMSTDQEELS
HWYQSLTLAISSQN

hide sequence

Ensembl Acc Id:

ENSCLAP00000003668 ⟸ ENSCLAT00000003742

Protein Domains

DH PH

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000002615	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000003742	ENTREZGENE
	ENSCLAT00000003742.1	UniProtKB/TrEMBL
Gene3D-CATH	1.20.900.10	UniProtKB/TrEMBL
	2.30.29.30	UniProtKB/TrEMBL
InterPro	ARHGEF39	UniProtKB/TrEMBL
	DBL_dom_sf	UniProtKB/TrEMBL
	DH-domain	UniProtKB/TrEMBL
	PH-like_dom_sf	UniProtKB/TrEMBL
	PH_domain	UniProtKB/TrEMBL
NCBI Gene	Arhgef39	ENTREZGENE
PANTHER	PTHR47056	UniProtKB/TrEMBL
	RHO GUANINE NUCLEOTIDE EXCHANGE FACTOR 39	UniProtKB/TrEMBL
Pfam	RhoGEF	UniProtKB/TrEMBL
PROSITE	DH_2	UniProtKB/TrEMBL
	PH_DOMAIN	UniProtKB/TrEMBL
SMART	RhoGEF	UniProtKB/TrEMBL
	SM00233	UniProtKB/TrEMBL
Superfamily-SCOP	PH domain-like	UniProtKB/TrEMBL
	SSF48065	UniProtKB/TrEMBL
UniProt	A0A8C2UNX4	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2016-08-16	Arhgef39	Rho guanine nucleotide exchange factor 39		Rho guanine nucleotide exchange factor (GEF) 39	Symbol and/or name change	5135510	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)

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Imported Disease Annotations - CTD