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Gene: Irx2 (iroquois homeobox 2) Rattus norvegicus

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Symbol:

Irx2

Name:

iroquois homeobox 2

RGD ID:

1309834

Description:

Predicted to enable DNA-binding transcription repressor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including negative regulation of transcription by RNA polymerase II; neuron differentiation; and proximal/distal pattern formation involved in nephron development. Predicted to be active in nucleus. Orthologous to human IRX2 (iroquois homeobox 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; 2,3,7,8-Tetrachlorodibenzofuran; 6-propyl-2-thiouracil.

Type:

protein-coding

RefSeq Status:

VALIDATED

Previously known as:

Iroquois related homeobox 2; Iroquois related homeobox 2 (Drosophila); Iroquois related homeobox 5; Iroquois related homeobox 5 (Drosophila); iroquois-class homeodomain protein IRX-2; Irx5; LOC306657

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):	IRX2 (iroquois homeobox 2)	HGNC	EggNOG, Ensembl, HomoloGene, Inparanoid, NCBI, OMA, OrthoDB, OrthoMCL, Panther
Mus musculus (house mouse):	Irx2 (Iroquois homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Irx2 (iroquois homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	IRX2 (iroquois homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	IRX2 (iroquois homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Irx2 (iroquois homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	IRX2 (iroquois homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	IRX2 (iroquois homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Irx2 (iroquois homeobox 2)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Other homologs ²
Homo sapiens (human):	SHPK (sedoheptulokinase)	HGNC	OMA
Alliance orthologs ³
Homo sapiens (human):	IRX2 (iroquois homeobox 2)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Irx2 (Iroquois homeobox 2)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	irx2a (iroquois homeobox 2a)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	irx-1	Alliance	DIOPT (Ensembl Compara\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	ara	Alliance	DIOPT (Ensembl Compara\|PANTHER\|PhylomeDB)
Drosophila melanogaster (fruit fly):	mirr	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|PANTHER)
Drosophila melanogaster (fruit fly):	mirr	Alliance	DIOPT (Ensembl Compara\|InParanoid\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	irx2	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	1	32,489,512 - 32,494,930 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	1	32,489,512 - 32,494,930 (-)	Ensembl				GRCr8
mRatBN7.2	1	30,660,960 - 30,666,378 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	30,660,960 - 30,666,378 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	1	30,463,094 - 30,468,512 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	36,462,033 - 36,467,451 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	30,661,873 - 30,667,293 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	33,270,388 - 33,275,868 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	33,271,977 - 33,275,540 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	1	34,682,802 - 34,688,217 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	17	743,534 - 748,950 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	1	29,295,635 - 29,301,053 (-)	NCBI		Celera
RGSC_v3.1	17	743,533 - 748,952 (-)	NCBI
Cytogenetic Map	1	p11	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

lung disease (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

1,1-dichloroethene (ISO)

17beta-estradiol (ISO)

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

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

4,4'-sulfonyldiphenol (ISO)

6-propyl-2-thiouracil (EXP)

acetamide (EXP)

aflatoxin B1 (ISO)

all-trans-retinoic acid (ISO)

alpha-Zearalanol (EXP)

amitrole (EXP)

belinostat (ISO)

benzo[a]pyrene (EXP,ISO)

bisphenol A (EXP,ISO)

cadmium atom (ISO)

carbamazepine (ISO)

carbon nanotube (ISO)

choline (ISO)

cisplatin (ISO)

cobalt dichloride (EXP)

dibenz[a,h]anthracene (ISO)

diethylstilbestrol (EXP)

dorsomorphin (ISO)

endosulfan (EXP)

entinostat (ISO)

folic acid (ISO)

gentamycin (EXP)

L-methionine (ISO)

lead(0) (ISO)

malathion (ISO)

methimazole (EXP)

methylmercury chloride (ISO)

nitrofen (EXP)

panobinostat (ISO)

paracetamol (EXP,ISO)

perfluorohexanesulfonic acid (ISO)

perfluorooctanoic acid (EXP)

permethrin (ISO)

progesterone (ISO)

SB 431542 (ISO)

silicon dioxide (ISO)

sodium arsenite (ISO)

sulfadimethoxine (EXP)

thioacetamide (EXP)

titanium dioxide (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

valproic acid (ISO)

vinclozolin (EXP)

vorinostat (ISO)

zaragozic acid A (EXP,ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

animal organ development (IEA)

cell development (IBA)

metanephros development (ISO)

negative regulation of transcription by RNA polymerase II (ISO)

neuron differentiation (IBA)

proximal/distal pattern formation involved in metanephric nephron development (ISO)

regulation of DNA-templated transcription (IEA)

regulation of transcription by RNA polymerase II (IBA,IEA)

specification of loop of Henle identity (ISO)

Cellular Component

nucleus (IBA,IEA)

Molecular Function

DNA binding (IEA)

DNA-binding transcription factor activity, RNA polymerase II-specific (IBA,IEA)

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

protein binding (ISO)

RNA polymerase II cis-regulatory region sequence-specific DNA binding (IBA)

sequence-specific DNA binding (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 MGI mouse gene data--August 2006	MGD data from the GO Consortium
3.	GOA pipeline	RGD automated data pipeline
4.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions

Additional References at PubMed

PMID:8889548	PMID:17875669	PMID:23332764	PMID:26560478

Genomics

Comparative Map Data

Irx2
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCr8	1	32,489,512 - 32,494,930 (-)	NCBI	GRCr8	GRCr8		GRCr8
GRCr8 Ensembl	1	32,489,512 - 32,494,930 (-)	Ensembl				GRCr8
mRatBN7.2	1	30,660,960 - 30,666,378 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	1	30,660,960 - 30,666,378 (-)	Ensembl				mRatBN7.2
UTH_Rnor_SHR_Utx	1	30,463,094 - 30,468,512 (-)	NCBI	UTH_Rnor_SHR_Utx	UTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0	1	36,462,033 - 36,467,451 (-)	NCBI	UTH_Rnor_SHRSP_BbbUtx_1.0	UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0	1	30,661,873 - 30,667,293 (-)	NCBI	UTH_Rnor_WKY_Bbb_1.0	UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0	1	33,270,388 - 33,275,868 (-)	NCBI	Rnor_6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	1	33,271,977 - 33,275,540 (-)	Ensembl			rn6	Rnor6.0
Rnor_5.0	1	34,682,802 - 34,688,217 (-)	NCBI	Rnor_5.0	Rnor_5.0	rn5
RGSC_v3.4	17	743,534 - 748,950 (-)	NCBI	RGSC_v3.4	RGSC_v3.4	rn4
Celera	1	29,295,635 - 29,301,053 (-)	NCBI		Celera
RGSC_v3.1	17	743,533 - 748,952 (-)	NCBI
Cytogenetic Map	1	p11	NCBI

IRX2
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	5	2,735,635 - 2,751,677 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	5	2,741,794 - 2,751,677 (-)	Ensembl			hg38	GRCh38
GRCh37	5	2,745,959 - 2,751,791 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	5	2,799,880 - 2,804,769 (-)	NCBI	Build 36	Build 36	hg18	NCBI36
Build 34	5	2,799,879 - 2,804,769	NCBI
Celera	5	2,778,127 - 2,783,618 (-)	NCBI		Celera
Cytogenetic Map	5	p15.33	NCBI
HuRef	5	2,722,301 - 2,727,305 (-)	NCBI		HuRef
CHM1_1	5	2,746,153 - 2,751,637 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	5	2,651,419 - 2,666,690 (-)	NCBI		T2T-CHM13v2.0

Irx2
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	13	72,771,463 - 72,782,315 (+)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	13	72,776,939 - 72,782,317 (+)	Ensembl		GRCm39 Ensembl		GRCm39
GRCm38	13	72,624,430 - 72,634,196 (+)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	13	72,628,820 - 72,634,198 (+)	Ensembl			mm10	GRCm38
MGSCv37	13	72,766,426 - 72,771,642 (+)	NCBI	MGSCv37	MGSCv37	mm9	NCBIm37
MGSCv36	13	73,095,476 - 73,100,582 (+)	NCBI		MGSCv36	mm8
Celera	13	74,957,966 - 74,961,598 (+)	NCBI		Celera
Celera	16	30,904,806 - 30,905,142 (-)	NCBI		Celera
Cytogenetic Map	13	C1	NCBI
cM Map	13	39.23	NCBI

Irx2
(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_004955504	1,455,664 - 1,460,996 (-)	Ensembl
ChiLan1.0	NW_004955504	1,456,433 - 1,460,996 (-)	NCBI	ChiLan1.0	ChiLan1.0

IRX2
(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	4	3,006,268 - 3,011,777 (-)	NCBI		NHGRI_mPanPan1-v2
NHGRI_mPanPan1	5	1,160,101 - 1,165,376 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	5	3,081,361 - 3,087,014 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	5	2,776,054 - 2,777,005 (-)	NCBI	PanPan1.1	PanPan1.1	panPan2

IRX2
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	34	10,228,067 - 10,233,214 (+)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	34	10,227,807 - 10,232,998 (+)	Ensembl			canFam3	CanFam3.1
Dog10K_Boxer_Tasha	34	14,739,959 - 14,745,015 (+)	NCBI	Dog10K_Boxer_Tasha	Dog10K_Boxer_Tasha
ROS_Cfam_1.0	34	10,129,223 - 10,134,284 (+)	NCBI	ROS_Cfam_1.0	ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	34	10,128,924 - 10,134,068 (+)	Ensembl				ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	34	10,182,769 - 10,187,824 (+)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	34	10,154,470 - 10,159,509 (+)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	34	10,371,265 - 10,376,323 (+)	NCBI	UU_Cfam_GSD_1.0	UU_Cfam_GSD_1.0

Irx2
(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_024407213	243,239,343 - 243,243,455 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936634	3,829,663 - 3,834,806 (+)	Ensembl		SpeTri2.0 Ensembl
SpeTri2.0	NW_004936634	3,830,617 - 3,834,494 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

IRX2
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	16	78,305,793 - 78,309,786 (+)	Ensembl			susScr11	Sscrofa11.1
Sscrofa11.1	16	78,305,869 - 78,322,776 (+)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	16	84,598,270 - 84,601,553 (+)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

IRX2
(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	4	2,547,205 - 2,552,085 (-)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	4	2,546,280 - 2,550,252 (-)	Ensembl		ChlSab1.1 Ensembl	chlSab2	Vervet-AGM
Vero_WHO_p1.0	NW_023666064	26,269,348 - 26,275,139 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Irx2
(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_004624751	1,453,390 - 1,457,470 (-)	Ensembl		HetGla_female_1.0 Ensembl	hetGla2	HetGla_female_1.0 Ensembl
HetGla 1.0	NW_004624751	1,453,390 - 1,457,500 (-)	NCBI	HetGla 1.0	HetGla 1.0	hetGla2

Variants

Variants in Irx2
31 total Variants

miRNA Target Status (No longer updated)

Predicted Target Of

	Summary Value
Count of predictions:	299
Count of miRNA genes:	189
Interacting mature miRNAs:	221
Transcripts:	ENSRNOT00000017019
Prediction methods:	Microtar, 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 (GRCr8)

The following QTLs overlap with this region.

RGD ID	Symbol	Name	LOD	P Value	Trait	Sub Trait	Chr	Start	Stop	Species
631688	Hcas2	Hepatocarcinoma susceptibility QTL 2	3	0.0001	liver integrity trait (VT:0010547)	liver tumorous lesion number (CMO:0001068)	1	7746118	52746118	Rat
1357397	Bw41	Body weight QTL 41	4.19	0.0001	body mass (VT:0001259)	body weight (CMO:0000012)	1	29409279	74409279	Rat
2313090	Bmd69	Bone mineral density QTL 69	4.4	0.0001	tibia mineral mass (VT:1000283)	compact volumetric bone mineral density (CMO:0001730)	1	5293229	34184556	Rat
4889451	Eae29	Experimental allergic encephalomyelitis QTL 29	5.51		nervous system integrity trait (VT:0010566)	experimental autoimmune encephalomyelitis severity score (CMO:0001419)	1	7746121	52746121	Rat
70179	Xhs2	X-ray hypersensitivity QTL 2	3.2		intestine integrity trait (VT:0010554)	post-insult time to onset of moribundity (CMO:0001896)	1	1	43965634	Rat
1558642	Prcr2	Prostate cancer resistance QTL 2	4.3		prostate integrity trait (VT:0010571)	area of ventral prostate occupied by tumorous lesions to total ventral prostate area ratio (CMO:0000899)	1	10379492	55379492	Rat
7421626	Bp360	Blood pressure QTL 360		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	1	6941022	51941022	Rat
1357401	Bw43	Body weight QTL 43	3.75		body mass (VT:0001259)	body weight (CMO:0000012)	1	6909353	51909353	Rat
2313070	Bss52	Bone structure and strength QTL 52	4.4	0.0001	body length (VT:0001256)	body length (CMO:0000013)	1	5293229	34184556	Rat
631494	Bp95	Blood pressure QTL 95	40	0.0001	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	1	17315378	51816258	Rat
5684998	Bss101	Bone structure and strength QTL 101	3.6		tibia strength trait (VT:1000284)	tibia ultimate force (CMO:0001734)	1	6909353	51909353	Rat
5684999	Bss102	Bone structure and strength QTL 102	5.5	7e-07	tibia strength trait (VT:1000284)	tibia stiffness (CMO:0001735)	1	6909353	51909353	Rat
2302038	Pia31	Pristane induced arthritis QTL 31	5.5	0.001	blood autoantibody amount (VT:0003725)	serum immunoglobulin M-type rheumatoid factor level relative to an arbitrary reference serum (CMO:0002111)	1	12820494	57820494	Rat
634353	Rends2	Renal damage susceptibility QTL 2		0.05	kidney blood vessel morphology trait (VT:0000530)	organ lesion measurement (CMO:0000677)	1	20656420	65656420	Rat
2317755	Glom22	Glomerulus QTL 22	3.8		urine protein amount (VT:0005160)	urine protein level (CMO:0000591)	1	1	34184556	Rat
1578756	Iddm22	Insulin dependent diabetes mellitus QTL 22	2.7		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	1	20508326	65508326	Rat
1331785	Rf27	Renal function QTL 27	4.643		urine sodium amount (VT:0006274)	urine sodium level (CMO:0000129)	1	30708375	87558729	Rat
631508	Sald1	Serum aldosterone level QTL 1	3.7		blood aldosterone amount (VT:0005346)	serum aldosterone level (CMO:0000487)	1	11684464	56684464	Rat
2313053	Bss51	Bone structure and strength QTL 51	3.8	0.0001	tibia length (VT:0004357)	tibia length (CMO:0000450)	1	5293229	34184556	Rat

Markers in Region

PMC262378P1

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	30,664,457 - 30,664,596 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	33,273,887 - 33,274,025	NCBI	Rnor6.0
Rnor_5.0	1	34,686,299 - 34,686,437	UniSTS	Rnor5.0
RGSC_v3.4	17	747,032 - 747,170	UniSTS	RGSC3.4
Celera	1	29,299,133 - 29,299,271	UniSTS
Cytogenetic Map	17	p14	UniSTS

RH132153

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	30,661,046 - 30,661,255 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	33,270,477 - 33,270,685	NCBI	Rnor6.0
Rnor_5.0	1	34,682,889 - 34,683,097	UniSTS	Rnor5.0
RGSC_v3.4	17	743,621 - 743,829	UniSTS	RGSC3.4
Celera	1	29,295,722 - 29,295,930	UniSTS
Cytogenetic Map	17	p14	UniSTS

Irx2

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	30,662,575 - 30,663,265 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	33,272,005 - 33,272,694	NCBI	Rnor6.0
Rnor_5.0	1	34,684,417 - 34,685,106	UniSTS	Rnor5.0
RGSC_v3.4	17	745,150 - 745,839	UniSTS	RGSC3.4
Celera	1	29,297,251 - 29,297,940	UniSTS
Cytogenetic Map	17	p14	UniSTS

Irx3

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	1	30,664,397 - 30,664,462 (+)	MAPPER	mRatBN7.2
Rnor_6.0	1	33,273,827 - 33,273,891	NCBI	Rnor6.0
Rnor_5.0	1	34,686,239 - 34,686,303	UniSTS	Rnor5.0
RGSC_v3.4	17	746,972 - 747,036	UniSTS	RGSC3.4
Celera	1	29,299,073 - 29,299,137	UniSTS
Cytogenetic Map	17	p14	UniSTS

Expression

RNA-SEQ Expression

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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
7	6	64	134	61	61	32	15	32	6	233	109	11	110	81	90	29	10	10

Sequence

Nucleotide Sequences


RefSeq Transcripts	NM_001039505	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_008758689	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	AW434973	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JAXUCZ010000001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

Ensembl Acc Id:

ENSRNOT00000017019 ⟹ ENSRNOP00000017019

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	1	32,489,512 - 32,494,930 (-)	Ensembl
mRatBN7.2 Ensembl	1	30,660,960 - 30,666,378 (-)	Ensembl
Rnor_6.0 Ensembl	1	33,271,977 - 33,275,540 (-)	Ensembl

Ensembl Acc Id:

ENSRNOT00000159929 ⟹ ENSRNOP00000103359

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8 Ensembl	1	32,489,517 - 32,494,930 (-)	Ensembl

RefSeq Acc Id:

NM_001039505 ⟹ NP_001034594

RefSeq Status:

VALIDATED

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
GRCr8	1	32,489,512 - 32,494,930 (-)	NCBI
mRatBN7.2	1	30,660,960 - 30,666,378 (-)	NCBI
Rnor_6.0	1	33,270,390 - 33,275,807 (-)	NCBI
Rnor_5.0	1	34,682,802 - 34,688,217 (-)	NCBI
RGSC_v3.4	17	743,534 - 748,950 (-)	RGD
Celera	1	29,295,635 - 29,301,053 (-)	NCBI

Sequence:

show sequence

GAGCGCTCCTTCCTCAACTCCTCACTCCTGACTGCAGACTCCCCCAAATCCCGACCGCCGGCCT
GGCGCGCGGCTGCGCCCACCGGCTCCGCTCTGCTGCCGCCGCCGCCGCCCCACCGATCCGCCAG
CCCCGCGCCCAGCTAGCGCCCTCCAGTCCAGCCTGCCCCGACCCACGGCCCCGGTGCGCCCCGG
CCGGGCGTGGATGGAGGGCGCCGCGCGCGCTGCCCGCTGCTCCGTGTGACGCGGGCCTTGCGCC
CGGCGCCCACCATGTCCTACCCGCAGGGCTACCTGTACCAAGCGCCCGGCTCGCTGGCGCTCTA
CTCGTGCCCCGCGTACGGCGCGTCCGCGCTGGCGGCGCCGCGCAGCGAAGAGCTGGCGCGCTCG
GCTTCGGGCTCCGCGTTCAGTCCGTACCCCGGCTCAGCGGCCTTCACAGCGCAGGCGGCCACCG
GCTTCGGCAGCCCGCTGCAGTACTCGGCCGACGCTGCCGCCGCCGCCGCTGCCGGCTTCCCGTC
CTACATGGGCTCGCCATACGACACGCACACCACCGGAATGACTGGCGCCATCAGTTATCACCCA
TATGGCAGCGCGGCCTACCCATACCAGCTTAACGACCCCGCGTACCGCAAGAACGCCACGCGGG
ACGCCACTGCCACACTGAAAGCCTGGCTCAACGAACACCGCAAGAACCCGTACCCCACCAAGGG
AGAGAAGATCATGCTGGCCATCATCACCAAGATGACCCTCACGCAGGTTTCCACCTGGTTCGCC
AACGCGCGCCGGCGCCTCAAGAAGGAGAACAAAATGACCTGGGCCCCGAGGAACAAAAGCGAAG
ACGAGGACGAGGACGAGGGAGATGCTTCCAGAAGCAAGGAGGAGAATCCAGACAAGGCACAGGA
CGGCACAGAGACCTCCGCGGAGGACGAAGGGATCAGTCTACACGTCGACTCGCTCACCGACCAC
TCGTGCTCGGCGGAGTCAGATGGGGAGAAATTGCCCTGCCGCGCCGGGGATCCCTTGTGCGAAT
CGGGCTCTGAGTGTAAGGACAAGTTTGAGGACCTGGAGGATGAGGAGGACGATGAAGACGAGTG
CGAGCGGGATCTGGTGCCGCCCAAGCCCGTAACCTCCTCGCCCCTCACCGGCGTGGAGGCACCC
CTGCTGAGCCCGGCGCCCGAAGCCGCGCCGCGCGGTGGTAGCGGTGGCAAGACGCCCCTAGGCA
GCCGGACGTCGCCTGGAGCGCCGCCGCCTGCCAGCAAGCCCAAGCTGTGGTCGCTGGCCGAGAT
AGCCACGTCGGACCTCAAGCAACCAAGCTTGGGCCCAGGGTGCGGGCCTCCGGGTCTGCCCGCT
GCCGCCGCGCCTGCCTCGTCTGGGGCCCCTCCGGGAGGCTCGCCCTACTCTGCTTCGCCGCTGC
TGGGCCGCCACCTCTATTACACGTCCCCTTTCTATGGCAACTACACAAACTACGGGAACTTAAA
CGCAGCGCTCCAAGGCCAGGGCCTTCTGCGGTACAATACCGCGGCCTCCTCACCAGGCGAGACA
CTGCACGCCATCCCAAAGGCGGCCAGCGACGCGGGCAAGGCGGGCTCGCATTCGCTGGAGTCCC
ACTACAGGCCTCCGGGCGGCGGCTACGAGCCCAAGAAAGATGCCAGTGAGGGCTGTGCAGTTGT
TGGTGCAGGCGTCCAGCCCTACCTATAGGAGGGCCAAGCTCAGCAGTGCAAGTAGGTGTCACAA
TTGCTTTGGAAAAAAAAAGTCAGGAGGCCATTCTCCCTTCCCAAGCTCATAAATACACAGATAC
AAACCCCAGATGTGGAAATGCGGACCACATTTTGTGCCACTGTATAGAGGATGCAGACTGCACT
GCCAACCCACAGACTCTAAGGACTGGACACACGTTGTTTGGGCATATGAGAACTCGTTGGCATA
GTATAGCTTCCCTATGTTTGTGTGACTTTTGGAAACAATCTGTTTTTTCTCAGGATATCTTCAC
TTCATTGCCACGGTATATATTCTATAGGTGTGATAGAACTTGCTGTAAAATTTATTTGTAAAAA
AAAATGTACACGGTAGAACTAATGTGATTGAAGAACTTGGGTCCTTCAGAAGTGGAAACAAATT
TGATATTTATTTTTATAATGACATAAAGCTTCTAGTAATTTATGCAAGTTGTATTGCAATGAAA
TCTAAAACTTTTGTAAATAAATTCTGCTGGTTTTTATTTGAACATTGCTGGTTATACAATCTCT
GTTGGTTGTTTAACATGAATTCTCTACTAATTTATATCTAAAACTGTAAATAAAAACAGATGAG
CCTACAAGAAAATGGTGTTCGGGGCTCATTTTTCCTGGAGAGCCATTCTGGTAGGAGCTACAGT
GTTGACCCTGGTTCCTGCCCCAAAGGTGATCCTAGCTCACCTTTTAAGTGAAGAGCCCAGTGAA
ATAAACTTCCTTCTCAAGCTTATTTGAAAATTGCAGACCTGAGAGAGATTAATGTGCAACAGGG
AAAATACCTATGCTTTAGTTTATTTACAGGCAAATGTGTCTCGAGAAAGTAATTCAGGTTTTTG
TTCTCTGAATATGCAAATCCCTTCTTAGTGTAAATTTCTAAAACATGAAAAAAAATAAAAGGAT
ATGTCACCTC

hide sequence

Protein Sequences


Protein RefSeqs	NP_001034594	(Get FASTA)	NCBI Sequence Viewer
Ensembl Protein	ENSRNOP00000017019
	ENSRNOP00000017019.4
	ENSRNOP00000103359.1

RefSeq Acc Id:

NP_001034594 ⟸ NM_001039505

- UniProtKB:

D3ZGA0 (UniProtKB/TrEMBL), A6JUY8 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSYPQGYLYQAPGSLALYSCPAYGASALAAPRSEELARSASGSAFSPYPGSAAFTAQAATGFGS
PLQYSADAAAAAAAGFPSYMGSPYDTHTTGMTGAISYHPYGSAAYPYQLNDPAYRKNATRDATA
TLKAWLNEHRKNPYPTKGEKIMLAIITKMTLTQVSTWFANARRRLKKENKMTWAPRNKSEDEDE
DEGDASRSKEENPDKAQDGTETSAEDEGISLHVDSLTDHSCSAESDGEKLPCRAGDPLCESGSE
CKDKFEDLEDEEDDEDECERDLVPPKPVTSSPLTGVEAPLLSPAPEAAPRGGSGGKTPLGSRTS
PGAPPPASKPKLWSLAEIATSDLKQPSLGPGCGPPGLPAAAAPASSGAPPGGSPYSASPLLGRH
LYYTSPFYGNYTNYGNLNAALQGQGLLRYNTAASSPGETLHAIPKAASDAGKAGSHSLESHYRP
PGGGYEPKKDASEGCAVVGAGVQPYL

hide sequence

Ensembl Acc Id:

ENSRNOP00000017019 ⟸ ENSRNOT00000017019

Ensembl Acc Id:

ENSRNOP00000103359 ⟸ ENSRNOT00000159929

Protein Domains

Homeobox

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-D3ZGA0-F1-model_v2	AlphaFold	D3ZGA0	1-474	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:1309834	AgrOrtholog
BioCyc Gene	G2FUF-61910	BioCyc
Ensembl Genes	ENSRNOG00000012742	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000017019	ENTREZGENE
	ENSRNOT00000017019.9	UniProtKB/TrEMBL
	ENSRNOT00000159929.1	UniProtKB/TrEMBL
Gene3D-CATH	Homeodomain-like	UniProtKB/TrEMBL
InterPro	Homeobox	UniProtKB/TrEMBL
	Homeobox_CS	UniProtKB/TrEMBL
	Homeobox_KN_domain	UniProtKB/TrEMBL
	Homeodomain-like	UniProtKB/TrEMBL
	Iroquois_homeo	UniProtKB/TrEMBL
KEGG Report	rno:306657	UniProtKB/TrEMBL
NCBI Gene	306657	ENTREZGENE
PANTHER	IROQUOIS-CLASS HOMEODOMAIN PROTEIN IRX	UniProtKB/TrEMBL
	IROQUOIS-CLASS HOMEODOMAIN PROTEIN IRX-2	UniProtKB/TrEMBL
Pfam	Homeobox_KN	UniProtKB/TrEMBL
PhenoGen	Irx2	PhenoGen
PROSITE	HOMEOBOX_1	UniProtKB/TrEMBL
	HOMEOBOX_2	UniProtKB/TrEMBL
RatGTEx	ENSRNOG00000012742	RatGTEx
SMART	HOX	UniProtKB/TrEMBL
	IRO	UniProtKB/TrEMBL
Superfamily-SCOP	Homeodomain_like	UniProtKB/TrEMBL
UniProt	A0ABK0LNN7_RAT	UniProtKB/TrEMBL
	A6JUY8	ENTREZGENE, UniProtKB/TrEMBL
	D3ZGA0	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2008-09-26	Irx2	iroquois homeobox 2	Irx2	Iroquois related homeobox 2 (Drosophila)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-03-07	Irx2	Iroquois related homeobox 2 (Drosophila)	Irx2_predicted	Iroquois related homeobox 2 (Drosophila) (predicted)	Symbol and Name status set to approved	1299863	APPROVED
2006-02-01	Irx2_predicted	Iroquois related homeobox 2 (Drosophila) (predicted)	Irx5_predicted	Iroquois related homeobox 5 (Drosophila) (predicted)	Symbol and Name updated	1299863	APPROVED
2005-01-12	Irx5_predicted	Iroquois related homeobox 5 (Drosophila) (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)

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Imported Disease Annotations - CTD