Vax2 (ventral anterior homeobox 2)

Gene: Vax2 (ventral anterior homeobox 2) Chinchilla lanigera

Analyze

Symbol:

Vax2

Name:

ventral anterior homeobox 2

RGD ID:

8846193

Description:

ENCODES a protein that exhibits chromatin DNA binding (ortholog); DNA-binding transcription repressor activity, RNA polymerase II-specific (ortholog); RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding (ortholog); INVOLVED IN axonogenesis (ortholog); camera-type eye development (ortholog); dorsal/ventral axis specification (ortholog); ASSOCIATED WITH dystonia (ortholog); genetic disease (ortholog); Methylmalonyl-CoA Epimerase Deficiency (ortholog); FOUND IN cytoplasm (ortholog); nucleus (ortholog)

Type:

protein-coding

RefSeq Status:

RGD Orthologs

Alliance Genes

More Info

more info ...

Latest Assembly:

ChiLan1.0 - Chinchilla ChiLan1.0 Assembly

Position:

Chinchilla Assembly	Chr	Position (strand)	Source	Genome Browsers
Chinchilla Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
ChiLan1.0 Ensembl	NW_004955424	14,283,327 - 14,309,809 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955424	14,283,336 - 14,309,809 (-)	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

dystonia (ISO)

genetic disease (ISO)

Methylmalonyl-CoA Epimerase Deficiency (ISO)

syndromic microphthalmia 5 (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

axonogenesis (ISO)

camera-type eye development (ISO)

dorsal/ventral axis specification (ISO)

embryonic eye morphogenesis (ISO)

forebrain development (ISO)

negative regulation of transcription by RNA polymerase II (ISO)

retina development in camera-type eye (ISO)

Cellular Component

cytoplasm (ISO)

nucleus (ISO)

Molecular Function

chromatin DNA binding (ISO)

DNA-binding transcription repressor activity, RNA polymerase II-specific (ISO)

protein binding (ISO)

RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding (ISO)

sequence-specific double-stranded DNA 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

Vax2
(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_004955424	14,283,327 - 14,309,809 (-)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955424	14,283,336 - 14,309,809 (-)	NCBI	ChiLan1.0	ChiLan1.0

VAX2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	2	70,900,576 - 70,933,446 (+)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	2	70,900,576 - 70,965,373 (+)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	2	71,127,706 - 71,160,576 (+)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	2	70,981,228 - 71,014,084 (+)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	2	71,039,374 - 71,072,228	NCBI
Celera	2	70,978,415 - 71,011,262 (+)	NCBI		Celera
Cytogenetic Map	2	p13.3	NCBI
HuRef	2	70,864,230 - 70,897,075 (+)	NCBI		HuRef
CHM1_1	2	71,057,048 - 71,089,924 (+)	NCBI		CHM1_1
T2T-CHM13v2.0	2	70,911,643 - 70,944,499 (+)	NCBI		T2T-CHM13v2.0

Vax2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	6	83,688,221 - 83,715,295 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	6	83,688,246 - 83,715,295 (+)	Ensembl		GRCm39 Ensembl
GRCm38	6	83,711,239 - 83,738,313 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	6	83,711,264 - 83,738,313 (+)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	6	83,661,258 - 83,688,298 (+)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	6	83,676,922 - 83,703,962 (+)	NCBI		MGSCv36	mm8
Celera	6	85,693,897 - 85,720,932 (+)	NCBI		Celera
Cytogenetic Map	6	C3	NCBI
cM Map	6	35.94	NCBI

Vax2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	4	117,753,180 - 117,777,242 (+)	NCBI		GRCr8
mRatBN7.2	4	116,195,528 - 116,219,597 (+)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	4	116,195,528 - 116,219,594 (+)	Ensembl		mRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx	4	121,674,313 - 121,698,030 (+)	NCBI	Rnor_SHR	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	4	117,449,490 - 117,473,203 (+)	NCBI	Rnor_SHRSP	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	4	116,063,178 - 116,086,845 (+)	NCBI	Rnor_WKY	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	4	115,388,839 - 115,412,515 (+)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	4	115,388,839 - 115,412,515 (+)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	4	179,975,806 - 180,001,477 (+)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
RGSC_v3.4	4	117,903,748 - 117,927,411 (+)	NCBI	RGSC3.4	RGSC_v3.4	rn4	RGSC3.4
RGSC_v3.1	4	118,148,228 - 118,171,892 (+)	NCBI
Celera	4	105,188,167 - 105,211,754 (+)	NCBI		Celera
Cytogenetic Map	4	q34	NCBI

VAX2
(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	12	55,454,485 - 55,487,355 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	2A	55,458,420 - 55,491,315 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	2A	70,964,829 - 70,997,702 (+)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	2A	72,078,829 - 72,111,463 (+)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	2A	72,078,829 - 72,111,463 (+)	Ensembl	panpan1.1		panPan2

VAX2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	10	69,252,926 - 69,262,225 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
Dog10K_Boxer_Tasha	10	69,139,681 - 69,148,943 (+)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	10	70,256,981 - 70,283,942 (+)	NCBI		ROS_Cfam_1.0
UNSW_CanFamBas_1.0	10	70,254,833 - 70,264,093 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	10	70,554,177 - 70,563,651 (+)	NCBI		UU_Cfam_GSD_1.0

Vax2
(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_024406292	13,461,054 - 13,491,844 (-)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936491	15,078,598 - 15,111,252 (+)	Ensembl	SpeTri2.0	SpeTri2.0 Ensembl
SpeTri2.0	NW_004936491	15,079,446 - 15,110,238 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

VAX2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	3	71,593,812 - 71,622,444 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	3	71,593,807 - 71,622,487 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	3	74,973,886 - 74,974,570 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

VAX2
(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	14	36,180,084 - 36,213,534 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	14	36,180,324 - 36,213,439 (-)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666045	75,809,094 - 75,842,440 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Vax2
(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_004624762	2,481,372 - 2,508,306 (-)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624762	2,480,474 - 2,508,367 (-)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Expression

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_005385606	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AGCD01024649	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	AGCD01024650	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	GBDI01159286	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSCLAT00000011168 ⟹ ENSCLAP00000011033

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0 Ensembl	NW_004955424	14,283,327 - 14,309,809 (-)	Ensembl

RefSeq Acc Id:

XM_005385606 ⟹ XP_005385663

Type:

CODING

Position:

Chinchilla Assembly	Chr	Position (strand)	Source
ChiLan1.0	NW_004955424	14,283,336 - 14,309,809 (-)	NCBI

Sequence:

show sequence

CGCAGGCTGCAGTGGCGGCCGGCATGGGCGATGGGGTCGCTGAGCGAGACCTCGGCCCCGCGCG
CCGGGCAGAGTCTGGTGGCGGCCGTGGGCGCAACGGGGACCTCGGTGGGGCGGAGGACTTGCGA
GCTGATGGAAGTGGCCGAAGGCCAAGGGAGATTGCGGGGACCTCGGCTTCCAGCCCCGCCGGCT
CCAGAGAGAGCAGCGCCGACAGCGACGGGCAGCCCGGGCCCGGCGAGGCGGACCACTGCCGCCG
CATCCTGGTGCGAGATGCCAAGGGCACCATCCGAGAAATTGTCCTGCCCAAGGGCTTGGACCTG
GACCGACCCAAGCGGACCCGCACGTCCTTCACTGCTGAGCAGCTGTACCGCCTGGAGATGGAGT
TCCAGCGCTGCCAGTATGTGGTGGGCCGAGAGCGCACCGAGCTGGCCCGCCAGCTGAACCTCTC
CGAGACGCAGGTGAAGGTCTGGTTCCAGAACCGCCGCACCAAGCAGAAGAAAGACCAGAGCAGA
GATCTGGAGAAGCGGGCATCCTCTGCCTCTGAGGCCTTTGCCACTTCCAACATTCTGCGGCTGC
TGGAGCAGGGCCGGCTGCTATCTGTACCCAGGGCGCCCAGCCTCCTGGCGCTGACTCCCGGCCT
GCCAGACCCGCCTGCTGGCCACCGGGGCACCTCCTTGGGCGACCCCAGGAACTCCTCTCCGCGA
CTCAATCCTCTGCCCTCAGCCTCGGCATCCCCTCCGCTGCCGCCCCCTCTGCCGACCATCTGCT
TTTCCACGGTCCCACTTCTGGACCTACCTGCCAGCTACGAACTGGGCTCCTCCGCCTTTGAGCC
CTACAACCGGCTAGAGAGGAAAGTAGGCAGTCCTGGTGGCGGTGGCAAGAAAGCTAACACGTAA
GCCTCCCAGCCCTGCGTGACTCTGAGTCCCCAGCACAGCACTGCCCCAGCCTCCTGGCCCCAGA
GGACTGCACTGAGCAGGCCCTTCAGGGAGGGCAGCAGCCGCAGCTCCCCGCACCTGCCCTCAGC
TCAGAGACTCGACCGACTGGCCTTGGTCCCGCAGCTTGTGTGTGTGAGTGCAGTGTGTGTGTGC
TGCGCATCTCTCACTGAAATAAAGGAAAACAATGACAA

hide sequence

Protein Sequences


Protein RefSeqs	XP_005385663	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSCLAP00000011033
	ENSCLAP00000011033.1

RefSeq Acc Id:

XP_005385663 ⟸ XM_005385606

- UniProtKB:

A0A8C2VA50 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MGDGVAERDLGPARRAESGGGRGRNGDLGGAEDLRADGSGRRPREIAGTSASSPAGSRESSADS
DGQPGPGEADHCRRILVRDAKGTIREIVLPKGLDLDRPKRTRTSFTAEQLYRLEMEFQRCQYVV
GRERTELARQLNLSETQVKVWFQNRRTKQKKDQSRDLEKRASSASEAFATSNILRLLEQGRLLS
VPRAPSLLALTPGLPDPPAGHRGTSLGDPRNSSPRLNPLPSASASPPLPPPLPTICFSTVPLLD
LPASYELGSSAFEPYNRLERKVGSPGGGGKKANT

hide sequence

RefSeq Acc Id:

ENSCLAP00000011033 ⟸ ENSCLAT00000011168

Protein Domains

Homeobox

Additional Information

External Database Links

Database	Acc Id	Source(s)
Ensembl Genes	ENSCLAG00000007615	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSCLAT00000011168	ENTREZGENE
	ENSCLAT00000011168.1	UniProtKB/TrEMBL
Gene3D-CATH	Homeodomain-like	UniProtKB/TrEMBL
InterPro	Homeobox-like_sf	UniProtKB/TrEMBL
	Homeobox_CS	UniProtKB/TrEMBL
	Homeobox_dom	UniProtKB/TrEMBL
	Homeobox_metazoa	UniProtKB/TrEMBL
	HTH_motif	UniProtKB/TrEMBL
NCBI Gene	Vax2	ENTREZGENE
PANTHER	HOMEOBOX PROTEIN EMX-RELATED	UniProtKB/TrEMBL
	PTHR24339:SF34	UniProtKB/TrEMBL
Pfam	Homeodomain	UniProtKB/TrEMBL
PRINTS	HOMEOBOX	UniProtKB/TrEMBL
	HTHREPRESSR	UniProtKB/TrEMBL
PROSITE	HOMEOBOX_1	UniProtKB/TrEMBL
	HOMEOBOX_2	UniProtKB/TrEMBL
SMART	HOX	UniProtKB/TrEMBL
Superfamily-SCOP	SSF46689	UniProtKB/TrEMBL
UniProt	A0A8C2VA50	ENTREZGENE, UniProtKB/TrEMBL

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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