Sall4 (spalt-like transcription factor 4)

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Gene: Sall4 (spalt-like transcription factor 4) Rattus norvegicus

Analyze

Symbol:

Sall4

Name:

spalt-like transcription factor 4

RGD ID:

1597672

Description:

Predicted to enable DNA-binding transcription factor activity, RNA polymerase II-specific and RNA polymerase II cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in regulation of transcription by RNA polymerase II. Predicted to act upstream of or within several processes, including chordate embryonic development; embryonic limb morphogenesis; and regulation of transcription by RNA polymerase II. Predicted to be located in nucleoplasm. Predicted to be part of heterochromatin. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Duane retraction syndrome; Duane-radial ray syndrome; Holt-Oram syndrome; IVIC syndrome; and ventricular septal defect. Orthologous to human SALL4 (spalt like transcription factor 4); INTERACTS WITH aflatoxin B1; azoxystrobin; bisphenol A.

Type:

protein-coding

RefSeq Status:

MODEL

Previously known as:

LOC686412; sal-like 4; sal-like 4 (Drosophila); sal-like protein 4; similar to sal-like 4 isoform a

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):	SALL4 (spalt like transcription factor 4)	HGNC	EggNOG, Ensembl, HomoloGene, NCBI, OMA, OrthoDB, Panther
Mus musculus (house mouse):	Sall4 (spalt like transcription factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chinchilla lanigera (long-tailed chinchilla):	Sall4 (spalt like transcription factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Pan paniscus (bonobo/pygmy chimpanzee):	SALL4 (spalt like transcription factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Canis lupus familiaris (dog):	SALL4 (spalt like transcription factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Ictidomys tridecemlineatus (thirteen-lined ground squirrel):	Sall4 (spalt like transcription factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Sus scrofa (pig):	SALL4 (spalt like transcription factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Chlorocebus sabaeus (green monkey):	SALL4 (spalt like transcription factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Heterocephalus glaber (naked mole-rat):	Sall4 (spalt like transcription factor 4)	Transitive Ortholog Pipeline	Transitive Ortholog Pipeline
Alliance orthologs ³
Homo sapiens (human):	SALL4 (spalt like transcription factor 4)	Alliance	DIOPT (Ensembl Compara\|HGNC\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Mus musculus (house mouse):	Sall4 (spalt like transcription factor 4)	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Danio rerio (zebrafish):	sall4 (spalt-like transcription factor 4)	Alliance	DIOPT (Hieranoid\|InParanoid\|OMA\|OrthoFinder\|OrthoInspector\|PANTHER\|PhylomeDB\|SonicParanoid)
Caenorhabditis elegans (roundworm):	sem-4	Alliance	DIOPT (InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	salm	Alliance	DIOPT (Hieranoid\|OrthoFinder\|PANTHER\|SonicParanoid)
Drosophila melanogaster (fruit fly):	salr	Alliance	DIOPT (InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)
Xenopus tropicalis (tropical clawed frog):	sall4	Alliance	DIOPT (Ensembl Compara\|Hieranoid\|InParanoid\|OrthoFinder\|OrthoInspector\|PANTHER)

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	3	157,474,067 - 157,491,055 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	157,474,642 - 157,490,822 (-)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	3	165,520,155 - 165,538,176 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	165,520,392 - 165,537,940 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	171,656,504 - 171,674,423 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	3	156,038,840 - 156,055,436 (-)	NCBI		Celera
Cytogenetic Map	3	q42	NCBI

JBrowse:

View Region in Genome Browser (JBrowse)

Model

Annotation Click to see Annotation Detail View

Disease Annotations Click to see Annotation Detail View

Congenital Limb Deformities (ISO)

Craniofacial Abnormalities (ISO)

Duane retraction syndrome (ISO)

Duane-radial ray syndrome (ISO,ISS)

Embryo Loss (ISO)

endodermal sinus tumor (ISO)

esophagus squamous cell carcinoma (ISO)

genetic disease (ISO)

hepatoblastoma (ISO)

Holt-Oram syndrome (ISO)

IVIC syndrome (ISO)

neural tube defect (ISO)

otitis media (ISS)

ovarian germ cell cancer (ISO)

Testicular Germ Cell Tumor (ISO)

ventricular septal defect (ISO)

Gene-Chemical Interaction Annotations Click to see Annotation Detail View

(20S)-ginsenoside Rg3 (ISO)

17beta-estradiol (ISO)

2,3',4,4',5-Pentachlorobiphenyl (ISO)

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

4,4'-diaminodiphenylmethane (ISO)

5-azacytidine (ISO)

aflatoxin B1 (EXP,ISO)

all-trans-retinoic acid (ISO)

azoxystrobin (EXP)

benzo[a]pyrene (ISO)

bis(2-ethylhexyl) phthalate (ISO)

bisphenol A (EXP,ISO)

bortezomib (ISO)

CGP 52608 (ISO)

chlorpyrifos (EXP,ISO)

cisplatin (ISO)

coumestrol (ISO)

cyclosporin A (ISO)

dioxygen (ISO)

dorsomorphin (ISO)

Enterolactone (ISO)

glyphosate (EXP,ISO)

imidacloprid (EXP)

lead diacetate (ISO)

lead(0) (ISO)

lenalidomide (ISO)

methylmercury chloride (ISO)

N,N-diethyl-m-toluamide (EXP)

paracetamol (ISO)

permethrin (EXP)

pevonedistat (ISO)

phenylmercury acetate (ISO)

pirinixic acid (ISO)

pomalidomide (ISO)

propanal (ISO)

resveratrol (ISO)

SB 431542 (ISO)

sodium arsenite (ISO)

sotorasib (ISO)

sulforaphane (ISO)

sunitinib (ISO)

testosterone (ISO)

thalidomide (ISO)

thiabendazole (EXP)

thimerosal (ISO)

trametinib (ISO)

trichloroethene (EXP)

trichostatin A (ISO)

valproic acid (ISO)

vorinostat (ISO)

Gene Ontology Annotations Click to see Annotation Detail View

Biological Process

biological_process (ND)

embryonic limb morphogenesis (ISO)

heart development (ISO)

in utero embryonic development (ISO)

inner cell mass cell proliferation (ISO)

negative regulation of transcription by RNA polymerase II (ISO)

neural tube closure (ISO)

neural tube development (ISO)

positive regulation of transcription by RNA polymerase II (ISO)

regulation of transcription by RNA polymerase II (IBA)

somatic stem cell population maintenance (ISO)

tissue development (ISO)

ventricular septum development (ISO)

Cellular Component

heterochromatin (ISO)

intracellular membrane-bounded organelle (ISO)

nucleoplasm (IEA,ISO)

nucleus (IBA,ISO)

protein-containing complex (ISO)

Molecular Function

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

protein binding (ISO)

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

References

References - curated

#	Reference Title	Reference Citation
1.	Duane radial ray syndrome (Okihiro syndrome) maps to 20q13 and results from mutations in SALL4, a new member of the SAL family.	Al-Baradie R, etal., Am J Hum Genet. 2002 Nov;71(5):1195-9. Epub 2002 Oct 22.
2.	Novel frameshift variant in gene SALL4 causing Okihiro syndrome.	Alves LU, etal., Eur J Med Genet. 2016 Feb;59(2):80-5. doi: 10.1016/j.ejmg.2015.12.015. Epub 2016 Jan 11.
3.	Sall1, sall2, and sall4 are required for neural tube closure in mice.	Bohm J, etal., Am J Pathol. 2008 Nov;173(5):1455-63. doi: 10.2353/ajpath.2008.071039. Epub 2008 Sep 25.
4.	SALL4 is a novel diagnostic marker for testicular germ cell tumors.	Cao D, etal., Am J Surg Pathol. 2009 Jul;33(7):1065-77. doi: 10.1097/PAS.0b013e3181a13eef.
5.	SALL4 is a novel sensitive and specific marker of ovarian primitive germ cell tumors and is particularly useful in distinguishing yolk sac tumor from clear cell carcinoma.	Cao D, etal., Am J Surg Pathol. 2009 Jun;33(6):894-904. doi: 10.1097/PAS.0b013e318198177d.
6.	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.
7.	SALL4 is a marker of the embryonal subtype of hepatoblastoma.	Gnemmi V, etal., Histopathology. 2013 Sep;63(3):425-8. doi: 10.1111/his.12187. Epub 2013 Jul 3.
8.	Immunohistochemical expression of SALL4 in hepatocellular carcinoma, a potential pitfall in the differential diagnosis of yolk sac tumors.	Gonzalez-Roibon N, etal., Hum Pathol. 2013 Jul;44(7):1293-9. doi: 10.1016/j.humpath.2012.10.017. Epub 2013 Jan 21.
9.	Okihiro syndrome is caused by SALL4 mutations.	Kohlhase J, etal., Hum Mol Genet. 2002 Nov 1;11(23):2979-87.
10.	Mutations at the SALL4 locus on chromosome 20 result in a range of clinically overlapping phenotypes, including Okihiro syndrome, Holt-Oram syndrome, acro-renal-ocular syndrome, and patients previously reported to represent thalidomide embryopathy.	Kohlhase J, etal., J Med Genet. 2003 Jul;40(7):473-8.
11.	OMIM Disease Annotation Pipeline	OMIM Disease Annotation Pipeline
12.	GOA pipeline	RGD automated data pipeline
13.	ClinVar Automated Import and Annotation Pipeline	RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
14.	Data Import for Chemical-Gene Interactions	RGD automated import pipeline for gene-chemical interactions
15.	Comprehensive gene review and curation	RGD comprehensive gene curation
16.	The murine homolog of SALL4, a causative gene in Okihiro syndrome, is essential for embryonic stem cell proliferation, and cooperates with Sall1 in anorectal, heart, brain and kidney development.	Sakaki-Yumoto M, etal., Development. 2006 Aug;133(15):3005-13. doi: 10.1242/dev.02457. Epub 2006 Jun 21.
17.	A family with features overlapping Okihiro syndrome, hemifacial microsomia and isolated Duane anomaly caused by a novel SALL4 mutation.	Terhal P, etal., Am J Med Genet A. 2006 Feb 1;140(3):222-6.
18.	Genetic variation of SAL-Like 4 (SALL4) in ventricular septal defect.	Wang B, etal., Int J Cardiol. 2010 Nov 19;145(2):224-6. doi: 10.1016/j.ijcard.2009.05.067. Epub 2009 Jul 19.
19.	A Sall4 mutant mouse model useful for studying the role of Sall4 in early embryonic development and organogenesis.	Warren M, etal., Genesis. 2007 Jan;45(1):51-8.
20.	Diversified clinical presentations associated with a novel sal-like 4 gene mutation in a Chinese pedigree with Duane retraction syndrome.	Yang MM, etal., Mol Vis. 2013 May 6;19:986-94. Print 2013.

Additional References at PubMed

PMID:16380715	PMID:17060609	PMID:17295837	PMID:19796622	PMID:20720539	PMID:26523946

Genomics

Comparative Map Data

Sall4
(Rattus norvegicus - Norway rat)

Rat Assembly	Chr	Position (strand)	Source	Genome Browsers
Rat Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
mRatBN7.2	3	157,474,067 - 157,491,055 (-)	NCBI	mRatBN7.2	mRatBN7.2
mRatBN7.2 Ensembl	3	157,474,642 - 157,490,822 (-)	Ensembl		mRatBN7.2 Ensembl
Rnor_6.0	3	165,520,155 - 165,538,176 (-)	NCBI	Rnor6.0	Rnor_6.0	rn6	Rnor6.0
Rnor_6.0 Ensembl	3	165,520,392 - 165,537,940 (-)	Ensembl	Rnor6.0		rn6	Rnor6.0
Rnor_5.0	3	171,656,504 - 171,674,423 (-)	NCBI	Rnor5.0	Rnor_5.0	rn5	Rnor5.0
Celera	3	156,038,840 - 156,055,436 (-)	NCBI		Celera
Cytogenetic Map	3	q42	NCBI

SALL4
(Homo sapiens - human)

Human Assembly	Chr	Position (strand)	Source	Genome Browsers
Human Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCh38	20	51,782,331 - 51,802,521 (-)	NCBI	GRCh38	GRCh38	hg38	GRCh38
GRCh38.p14 Ensembl	20	51,782,331 - 51,802,521 (-)	Ensembl	GRCh38		hg38	GRCh38
GRCh37	20	50,398,870 - 50,419,060 (-)	NCBI	GRCh37	GRCh37	hg19	GRCh37
Build 36	20	49,833,988 - 49,852,421 (-)	NCBI	NCBI36	Build 36	hg18	NCBI36
Build 34	20	49,833,991 - 49,852,421	NCBI
Celera	20	47,105,283 - 47,123,757 (-)	NCBI		Celera
Cytogenetic Map	20	q13.2	NCBI
HuRef	20	47,147,931 - 47,166,405 (-)	NCBI		HuRef
CHM1_1	20	50,305,475 - 50,323,937 (-)	NCBI		CHM1_1
T2T-CHM13v2.0	20	53,553,791 - 53,573,978 (-)	NCBI		T2T-CHM13v2.0

Sall4
(Mus musculus - house mouse)

Mouse Assembly	Chr	Position (strand)	Source	Genome Browsers
Mouse Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
GRCm39	2	168,590,252 - 168,609,121 (-)	NCBI	GRCm39	GRCm39	mm39
GRCm39 Ensembl	2	168,590,252 - 168,609,863 (-)	Ensembl		GRCm39 Ensembl
GRCm38	2	168,748,332 - 168,767,201 (-)	NCBI	GRCm38	GRCm38	mm10	GRCm38
GRCm38.p6 Ensembl	2	168,748,332 - 168,767,943 (-)	Ensembl	GRCm38		mm10	GRCm38
MGSCv37	2	168,573,832 - 168,592,701 (-)	NCBI	GRCm37	MGSCv37	mm9	NCBIm37
MGSCv36	2	168,440,991 - 168,458,333 (-)	NCBI		MGSCv36	mm8
Celera	2	174,694,286 - 174,713,507 (-)	NCBI		Celera
Cytogenetic Map	2	H3	NCBI
cM Map	2	88.99	NCBI

Sall4
(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_004955445	6,824,770 - 6,842,187 (+)	Ensembl	ChiLan1.0
ChiLan1.0	NW_004955445	6,824,797 - 6,841,141 (+)	NCBI	ChiLan1.0	ChiLan1.0

SALL4
(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	20	57,529,106 - 57,549,399 (-)	NCBI		NHGRI_mPanPan1
Mhudiblu_PPA_v0	20	48,130,387 - 48,150,569 (-)	NCBI	Mhudiblu_PPA_v0	Mhudiblu_PPA_v0	panPan3
PanPan1.1	20	49,252,320 - 49,272,973 (-)	NCBI	panpan1.1	PanPan1.1	panPan2
PanPan1.1 Ensembl	20	49,254,039 - 49,273,589 (-)	Ensembl	panpan1.1		panPan2

SALL4
(Canis lupus familiaris - dog)

Dog Assembly	Chr	Position (strand)	Source	Genome Browsers
Dog Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
CanFam3.1	24	37,941,498 - 37,959,713 (-)	NCBI	CanFam3.1	CanFam3.1	canFam3	CanFam3.1
CanFam3.1 Ensembl	24	37,940,034 - 38,037,287 (-)	Ensembl	CanFam3.1		canFam3	CanFam3.1
Dog10K_Boxer_Tasha	24	37,180,959 - 37,200,584 (-)	NCBI		Dog10K_Boxer_Tasha
ROS_Cfam_1.0	24	38,651,355 - 38,669,523 (-)	NCBI		ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl	24	38,649,920 - 38,749,658 (-)	Ensembl		ROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1	24	37,887,041 - 37,905,946 (-)	NCBI		UMICH_Zoey_3.1
UNSW_CanFamBas_1.0	24	38,020,086 - 38,039,234 (-)	NCBI		UNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0	24	38,565,716 - 38,585,336 (-)	NCBI		UU_Cfam_GSD_1.0

Sall4
(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_024408640	187,831,936 - 187,849,998 (+)	NCBI		HiC_Itri_2
SpeTri2.0 Ensembl	NW_004936514	3,285,531 - 3,303,644 (+)	Ensembl	SpeTri2.0
SpeTri2.0	NW_004936514	3,285,778 - 3,302,179 (+)	NCBI	SpeTri2.0	SpeTri2.0		SpeTri2.0

SALL4
(Sus scrofa - pig)

Pig Assembly	Chr	Position (strand)	Source	Genome Browsers
Pig Assembly	Chr	Position (strand)	Source	JBrowse	NCBI	UCSC	Ensembl
Sscrofa11.1 Ensembl	17	53,084,310 - 53,103,190 (-)	Ensembl	Sscrofa11.1		susScr11	Sscrofa11.1
Sscrofa11.1	17	53,082,610 - 53,103,023 (-)	NCBI	Sscrofa11.1	Sscrofa11.1	susScr11	Sscrofa11.1
Sscrofa10.2	17	59,526,086 - 59,533,416 (-)	NCBI	Sscrofa10.2	Sscrofa10.2	susScr3

SALL4
(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	12,179,721 - 12,199,629 (+)	NCBI	ChlSab1.1	ChlSab1.1	chlSab2
ChlSab1.1 Ensembl	2	12,182,357 - 12,199,321 (+)	Ensembl	ChlSab1.1	ChlSab1.1 Ensembl	chlSab2
Vero_WHO_p1.0	NW_023666050	60,576,222 - 60,593,578 (+)	NCBI	Vero_WHO_p1.0	Vero_WHO_p1.0

Sall4
(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_004624790	4,162,454 - 4,170,923 (+)	Ensembl	HetGla_female_1.0	HetGla_female_1.0 Ensembl	hetGla2
HetGla 1.0	NW_004624790	4,153,157 - 4,170,813 (+)	NCBI	HetGla_female_1.0	HetGla 1.0	hetGla2

Variants

Variants in Sall4
55 total Variants

miRNA Target Status

Predicted Target Of

	Summary Value
Count of predictions:	64
Count of miRNA genes:	30
Interacting mature miRNAs:	32
Transcripts:	ENSRNOT00000070964, ENSRNOT00000071119
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
70216	Cm14	Cardiac mass QTL 14	2.1		heart mass (VT:0007028)	heart wet weight (CMO:0000069)	3	31172320	163586636	Rat
1559282	Emca5	Estrogen-induced mammary cancer QTL 5	3.9		mammary gland integrity trait (VT:0010552)	percentage of study population developing mammary tumors during a period of time (CMO:0000948)	3	43827364	169034231	Rat
1581568	Rf53	Renal function QTL 53			urine total protein amount (VT:0000032)	urine protein excretion rate to body weight ratio (CMO:0001099)	3	56395968	161299569	Rat
631841	Niddm39	Non-insulin dependent diabetes mellitus QTL 39	3.36		blood glucose amount (VT:0000188)	blood glucose level (CMO:0000046)	3	94856903	159898684	Rat
2312659	Slep7	Serum leptin concentration QTL 7		0.001	blood leptin amount (VT:0005667)	serum leptin level (CMO:0000780)	3	98535255	168026850	Rat
2312670	Bw94	Body weight QTL 94		0.01	inguinal fat pad mass (VT:0010424)	inguinal fat pad weight to body weight ratio (CMO:0001253)	3	98535255	168026850	Rat
2312673	Scl63	Serum cholesterol level QTL 63		0.001	blood cholesterol amount (VT:0000180)	serum total cholesterol level (CMO:0000363)	3	98535255	168026850	Rat
2302373	Gluco39	Glucose level QTL 39	5.01		blood glucose amount (VT:0000188)	blood glucose level area under curve (AUC) (CMO:0000350)	3	98535386	161695835	Rat
1578754	Stresp16	Stress response QTL 16	4	0.001	blood renin amount (VT:0003349)	plasma renin activity level (CMO:0000116)	3	112681431	157681431	Rat
1576306	Schws3	Schwannoma susceptibility QTL 3		0.001	nervous system integrity trait (VT:0010566)	percentage of study population developing trigeminal nerve neurilemmomas during a period of time (CMO:0002017)	3	118839124	163839124	Rat
1598877	Bp285	Blood pressure QTL 285	1.5	0.03	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	120538241	165538241	Rat
10755461	Coatc16	Coat color QTL 16			coat/hair pigmentation trait (VT:0010463)	pigmented ventral coat/hair area to total ventral coat/hair area ratio (CMO:0001812)	3	122438700	167438700	Rat
631541	Bp81	Blood pressure QTL 81	4		arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	124122556	169034231	Rat
2303620	Vencon4	Ventilatory control QTL 4	3.9		respiration trait (VT:0001943)	tidal volume (CMO:0000222)	3	127162703	168026850	Rat
631673	Iddm13	Insulin dependent diabetes mellitus QTL 13	1.3	0.663	blood glucose amount (VT:0000188)	plasma glucose level (CMO:0000042)	3	130193298	161695983	Rat
1578656	Vnigr2	Vascular neointimal growth QTL 2	4.2		artery morphology trait (VT:0002191)	lesioned artery residual lumen area (CMO:0001417)	3	130656562	169034231	Rat
1578653	Vnigr3	Vascular neointimal growth QTL 3	3.1		artery morphology trait (VT:0002191)	artery neointimal hyperplastic lesion area (CMO:0001414)	3	130656562	169034231	Rat
9589106	Insul23	Insulin level QTL 23	13.86	0.001	blood insulin amount (VT:0001560)	plasma insulin level (CMO:0000342)	3	131635904	169034231	Rat
2298477	Eau4	Experimental allergic uveoretinitis QTL 4		0.0011	uvea integrity trait (VT:0010551)	experimental autoimmune uveitis score (CMO:0001504)	3	137398739	169034231	Rat
8552952	Pigfal13	Plasma insulin-like growth factor 1 level QTL 13			blood insulin-like growth factor amount (VT:0010479)	plasma insulin-like growth factor 1 level (CMO:0001299)	3	138799500	169034231	Rat
1298068	Bp167	Blood pressure QTL 167		0.004	arterial blood pressure trait (VT:2000000)	systolic blood pressure (CMO:0000004)	3	141074471	169034231	Rat
1331726	Bp208	Blood pressure QTL 208	3.129		arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	141339013	162184794	Rat
2317883	Alcrsp26	Alcohol response QTL 26	1.8	0.63	response to alcohol trait (VT:0010489)	duration of loss of righting reflex (CMO:0002289)	3	145526770	169034231	Rat
12879871	Am7	Aortic mass QTL 7		0.001	aorta mass (VT:0002845)	aorta weight to aorta length to body weight ratio (CMO:0002722)	3	145925360	166177555	Rat
12879872	Cm97	Cardiac mass QTL 97		0.001	heart left ventricle mass (VT:0007031)	heart left ventricle weight to body weight ratio (CMO:0000530)	3	145925360	166177555	Rat
12879873	Cm96	Cardiac mass QTL 96		0.001	heart mass (VT:0007028)	heart wet weight to body weight ratio (CMO:0002408)	3	145925360	166177555	Rat
12879874	Cm98	Cardiac mass QTL 98		0.005	heart right ventricle mass (VT:0007033)	heart right ventricle weight to body weight ratio (CMO:0000914)	3	145925360	166177555	Rat
12879875	Kidm64	Kidney mass QTL 64		0.001	kidney mass (VT:0002707)	both kidneys wet weight to body weight ratio (CMO:0000340)	3	145925360	166177555	Rat
12879876	Bw182	Body weight QTL 182		0.003	body mass (VT:0001259)	body weight (CMO:0000012)	3	145925360	166177555	Rat
2301411	Bp320	Blood pressure QTL 320		0.001	arterial blood pressure trait (VT:2000000)	mean arterial blood pressure (CMO:0000009)	3	145925360	166177555	Rat
1598854	Memor10	Memory QTL 10	2		exploratory behavior trait (VT:0010471)	average horizontal distance between subject and target during voluntary locomotion in an experimental apparatus (CMO:0002674)	3	145956084	161299569	Rat
8552791	Vie2	Viral induced encephalitis QTL 2	4.1		brain integrity trait (VT:0010579)	encephalitis incidence/prevalence measurement (CMO:0002361)	3	145956084	169034231	Rat
1578666	Vnigr1	Vascular neointimal growth QTL 1	4.6		artery morphology trait (VT:0002191)	artery lumen area (CMO:0001409)	3	149040888	168026850	Rat

Markers in Region

UniSTS:234614

Rat Assembly	Chr	Position (strand)	Source	JBrowse
mRatBN7.2	3	157,474,128 - 157,474,212 (+)	MAPPER	mRatBN7.2
Rnor_6.0	3	165,519,879 - 165,519,962	NCBI	Rnor6.0
Rnor_5.0	3	171,656,228 - 171,656,311	UniSTS	Rnor5.0
Celera	3	156,038,564 - 156,038,647	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		2	4	4		4			10		10
Low		33	21	21		21	1	4	25	14	19		1
Below cutoff	2	8	15	13	2	13	7	7	24	6	8	1	7

View RNA-SEQ Expression Data

Sequence

Nucleotide Sequences


RefSeq Transcripts	XM_001074001	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_003749632	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006224745	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	XM_006235656	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
GenBank Nucleotide	CH474005	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles
	JACYVU010000120	(Get FASTA)	NCBI Sequence Viewer	Search GEO for Microarray Profiles

RefSeq Acc Id:

ENSRNOT00000070964 ⟹ ENSRNOP00000066945

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	3	157,474,642 - 157,490,822 (-)	Ensembl
Rnor_6.0 Ensembl	3	165,520,392 - 165,537,940 (-)	Ensembl

RefSeq Acc Id:

ENSRNOT00000071119 ⟹ ENSRNOP00000067726

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2 Ensembl	3	157,474,642 - 157,490,822 (-)	Ensembl
Rnor_6.0 Ensembl	3	165,520,392 - 165,537,940 (-)	Ensembl

RefSeq Acc Id:

XM_003749632 ⟹ XP_003749680

Type:

CODING

Position:

Rat Assembly	Chr	Position (strand)	Source
mRatBN7.2	3	157,474,067 - 157,491,055 (-)	NCBI
Rnor_6.0	3	165,520,155 - 165,538,176 (-)	NCBI
Rnor_5.0	3	171,656,504 - 171,674,423 (-)	NCBI

Sequence:

show sequence

AGCATGCCTCTCCCCTCCCTGATCAATGAGGGCTTATTTAAATGATCTCTGAGGTCTTGGACCC
AGGCCAATCAGCTGTCAGAGCTCATGATAAATCGCAATGCATTATTGATAATAATAATTACTGG
GACATGCGCGTTCCTGCCGAAGGGGGGTAAAATTTCCTAACTCCAGGAATTGGTGGCGGAGAAG
GGCCAAGTCACCAGGGCTCTTCCCGGCGCCCCGATGCGCGCACCATGTCGAGGCGCAAGCAGGC
GAAGCCCCAGCACATCAACTCGGAGGAGGGCCAGGGCGAGCAGCCGCTGCAGCAACCGAGCCCT
GGCCTCGCAGAGGCGCCGGCGGCGGAGGAACCCGGTGTTCCAGTGAATTCCTCAGGGAACGGAG
ATGAAGCCTCGGAGGACCCCGCCCCCGCCCCGGTGAAGCGGTCCCGACGGGAGGATACTCACAT
CTGTAACAAGTGCTGTGCGGAGTTCTTCAGTCTCTCTGAGTTCATGGAACACAAGAAAAGTTGC
ACTAAGAACCCTCCTGTCCTCATCATGAATGACAGCGAGGGGGCTGTGCCTCCAGAGGACTTTT
CCAGAGCTGTCCTGGGCAGCCCAAGCAATAAAGATGGTCTCCAGGAGAATGGCGGCAGCAGCTC
GGGGGACTTGAAGGAGAACCTAGGCACGGACTCCATCCTGTACTTGAAGACAGAGGCGACCCAG
CCACCCGCACCCCAGGACATAAGCTATTTGCCCAAAGGCAAAGTAGCCAACACCAATGTGACTC
TGCAAGCGCTCCGTGGCACCAAGGTGGCAGTGAACCAGCGGAGCACCGATGTCCCCGCGGCCCC
CGTGCCTGCCGCTCTCAGCATCCCTTGGATCCTGGAGCAGATCTTGTGCCTGCAGCAGCAGCAG
CTCCAGCAGATCCAGCTAACGGAACAGATCAGAGTCCAGGTGAACATGTGGGCCGCGCATGCCC
TCCACTCTGGCGTGGCAGGCGCGGACACTCTCAAGGCCTTAAGCAACCACGTGTCTCAGCAGGT
CTCTGTCTCCCAGCAGGTGTCTGCTGCTGTGGCCCTGCTTAGCCAGAAAGCCTCCAACCCAACT
CTGTCTCTAGATGCCTTGAAACAAGCCAAGCTACCTCATGCCGCTGTCCCCTCCACGGCCAGCT
CATTGTCCTCGGGGTTCACACCCTTCGCCTTGAAGCCGGACGGGACTCGAGTTCTCCCCAACTT
CATGTCCCGCCTCCCGAATGCCCTGCTACCTCAGACCCCGGGCTCTGTGCTCCTGCAGAGTCCC
TTCTCTACTGTGACACTGGACCAGTCCAAGAAAGGAAAGGGGAAACCCCAAAACCTCTCCGCCT
CCATGTTAGATGCCAAGACCAAGGACGAGGTTGTCCTCGGTAAGCACAAGTGTAGGTACTGTAG
TAAGGTTTTCGGGACCGATAGCTCCCTTCAGATTCATCTTCGCTCCCACACCGGAGAGAGACCT
TACGTGTGCCCTGTCTGTGGTCACCGCTTCACCACCAAGGGCAACCTCAAGGTCCACTTCCATC
GACACCCTCAGGTGAAGGCGAACCCCCAGCTGTTTGCCACTGAATTCCAGGACAAAGGGGCATC
AAGCACCAGTCCTCACTATGCACTCCCTGTCCCCATCCCTGTAGACGAGTCAAGTCTCTCTGTA
GACACTGAGCCTGTCCCGGTCACGGGAACCCCTTCCATAGGGCTACCTCAGAAGCTCACTTCAG
GGCCTAACCCCAAGGACCTCATGGGCGGCTCCTTGCCCAACGACATACAGCCAGGGCCTTCTCC
AGAAAGCGAGGTGGGCCTTCCACTCCTCGGGGCGGGGATGATGCGTAATCCCCCAAGGGCTGGG
GGCTTCCAGGGCACTGGAGCCCCAGAGTCAGGGTCAGAGACCCTGAAGTTACAGCAGCTAGTGG
AGAACATAGACAAGGCCACCACCGACCCCAACGAGTGTCTCATTTGTCATCGGGTCCTCAGCTG
TCAGAGTTCCCTTAAGATGCATTACCGTACCCACACAGGAGAGAGACCATTCCAATGCAAGATC
TGTGGCCGGGCCTTCTCCACCAAAGGCAACCTGAAGACACATCTTGGGGTTCACCGAACAAACA
TGGCCGTAAAGACCCAGCATTCGTGCCCCATCTGCCAGAAGAAGTTCACCAATGCCGTCATGTT
ACAGCAGCATATCCGGATGCACATGGGTGGCCAGATCCCCAACACGCCTCTGCCCGAGAGTCCC
TGCGACTTCACAGTTCCCGAGCCCATGGCCGTCAGTGAGAACGGCGGTGGCAGCGGTGTCTGCC
AGGAAGACGCGGTAGAAGGGATGGAAGCGGAGGAGGCTTGTATCCAGGATGTTCCCGGTGGCCC
CTCGACGGTCTCCGCGCCGCTCCCCGGAACCCATCTGGCGTCGCCCTCCCTGGGCTTTCCGGTG
ATGGCTCCCCTGGATGCTCAGGGGAGAGGGGCTCTTCCTGCTTTGGCCTTGCAACGGCAGAGCA
GTCGAGAAAGCGGCTCTCTGGAGGCCGGTGACAGTTGCCTGACCAATGACTCTTCCTCGCTCAT
GGGTGACCAGGAGTGTCCGAGCCGGAGCCCAGATGCCACGGAGACCATGTGCTACCAGGCAGTG
TCCCCTGCCAATAGCCAAGCTGGAAGTGTCAAGTCCCGGTCTCCCGACGGTCACAAGGCCGAGG
GTGTCGAGAGCTGCCGCGTGGACACCGAAGGCCGTACCAGCCTCCCCTCGACATTTATCCGAGC
ACAGCCCACCTTTGTCAAAGTTGAAGTACCTGGCTCCTTTGTGGGACCCCCGAGCGTGCCCTCA
GGCATGACGCCTCTGCTAGCTTCCCAGCAGCCGCCGCGCCGCCAGGCCAAGCAACACTCTTGCA
CCCGGTGCGGGAAGAACTTCTCGTCCGCCAGTGCCCTGCAGATCCACGAGCGAACGCACACGGG
AGAAAAGCCTTTCGTGTGTAACATATGTGCTCGGGCCTTCACCACGAAAGGCAACCTGAAGGTA
CACTACATGACTCATGGGACCAACAATAACTCCGCCCGCCGAGGCAGGAAGCTGGCCATAGAGA
ATACCATGGCCGCCCTGGGTGCTGAGGGAAAGAGAGCACCTGAGGTGTTTCCCAAGGAGCTCCT
GTCCCCCACGGTGAGTGTGGACCCTGCCACGTGGAACCAGTACACCAGTGTCCTCAATGGGGGT
CTGGCCATGAAGACCAATGAGATCTCTGTGATCCAGAGTGGAGGGATCCCCACCCTGCCTGTGT
CTCTGGGGGCCAGCTCCGTGGTGAGCAACCCCACGCTTTCTAAGCTGGATGGCTCCCAGACCGG
CGGGAGCGGGGCCATGAGTGGGGCCATGAGCGGGAACCTAGAGAAGCCTGGCGTTCCCGATGGG
GTGGCCAAACACCAGTTTCCTCATTTTCTGGAGGAAAATAAGATCGCAGTCAGCTAAGGAGGAA
GAGGAGGAGGCTGCCGGAGTGAGATTCTAGAGTCTTCTTCATTGTTCAGTTTCCTTAACAGCCC
ATCTCCCTTTCTCCCTACTCTTCCTGATATGCAAGTGATGTGGCTTGTGACCATACCCTTGGGC
AATCCTACAATCACGTTATGCTGCTTTCCAAAAAAAAGAATGAAAACAAAATGGAGAAAAAGTG
AAAAACAGAAAAACAACAAAAACCAAGCCAAAAAAACA

hide sequence

Protein Sequences


Protein RefSeqs	XP_003749680	(Get FASTA)	NCBI Sequence Viewer
GenBank Protein	EDL96356	(Get FASTA)	NCBI Sequence Viewer

RefSeq Acc Id:

XP_003749680 ⟸ XM_003749632

- UniProtKB:

M0RDM1 (UniProtKB/TrEMBL), A6JXQ3 (UniProtKB/TrEMBL)

- Sequence:

show sequence

MSRRKQAKPQHINSEEGQGEQPLQQPSPGLAEAPAAEEPGVPVNSSGNGDEASEDPAPAPVKRS
RREDTHICNKCCAEFFSLSEFMEHKKSCTKNPPVLIMNDSEGAVPPEDFSRAVLGSPSNKDGLQ
ENGGSSSGDLKENLGTDSILYLKTEATQPPAPQDISYLPKGKVANTNVTLQALRGTKVAVNQRS
TDVPAAPVPAALSIPWILEQILCLQQQQLQQIQLTEQIRVQVNMWAAHALHSGVAGADTLKALS
NHVSQQVSVSQQVSAAVALLSQKASNPTLSLDALKQAKLPHAAVPSTASSLSSGFTPFALKPDG
TRVLPNFMSRLPNALLPQTPGSVLLQSPFSTVTLDQSKKGKGKPQNLSASMLDAKTKDEVVLGK
HKCRYCSKVFGTDSSLQIHLRSHTGERPYVCPVCGHRFTTKGNLKVHFHRHPQVKANPQLFATE
FQDKGASSTSPHYALPVPIPVDESSLSVDTEPVPVTGTPSIGLPQKLTSGPNPKDLMGGSLPND
IQPGPSPESEVGLPLLGAGMMRNPPRAGGFQGTGAPESGSETLKLQQLVENIDKATTDPNECLI
CHRVLSCQSSLKMHYRTHTGERPFQCKICGRAFSTKGNLKTHLGVHRTNMAVKTQHSCPICQKK
FTNAVMLQQHIRMHMGGQIPNTPLPESPCDFTVPEPMAVSENGGGSGVCQEDAVEGMEAEEACI
QDVPGGPSTVSAPLPGTHLASPSLGFPVMAPLDAQGRGALPALALQRQSSRESGSLEAGDSCLT
NDSSSLMGDQECPSRSPDATETMCYQAVSPANSQAGSVKSRSPDGHKAEGVESCRVDTEGRTSL
PSTFIRAQPTFVKVEVPGSFVGPPSVPSGMTPLLASQQPPRRQAKQHSCTRCGKNFSSASALQI
HERTHTGEKPFVCNICARAFTTKGNLKVHYMTHGTNNNSARRGRKLAIENTMAALGAEGKRAPE
VFPKELLSPTVSVDPATWNQYTSVLNGGLAMKTNEISVIQSGGIPTLPVSLGASSVVSNPTLSK
LDGSQTGGSGAMSGAMSGNLEKPGVPDGVAKHQFPHFLEENKIAVS

hide sequence

RefSeq Acc Id:

ENSRNOP00000066945 ⟸ ENSRNOT00000070964

RefSeq Acc Id:

ENSRNOP00000067726 ⟸ ENSRNOT00000071119

Protein Domains

C2H2-type

Protein Structures

Name	Modeler	Protein Id	AA Range	Protein Structure
AF-M0RDM1-F1-model_v2	AlphaFold	M0RDM1	1-1070	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:1597672	AgrOrtholog
BioCyc Gene	G2FUF-46693	BioCyc
Ensembl Genes	ENSRNOG00000050035	Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein	ENSRNOP00000066945.1	UniProtKB/TrEMBL
	ENSRNOP00000067726	ENTREZGENE
	ENSRNOP00000067726.1	UniProtKB/TrEMBL
Ensembl Transcript	ENSRNOT00000070964.2	UniProtKB/TrEMBL
	ENSRNOT00000071119	ENTREZGENE
	ENSRNOT00000071119.4	UniProtKB/TrEMBL
Gene3D-CATH	Classic Zinc Finger	UniProtKB/TrEMBL
InterPro	Znf_C2H2/integrase_DNA-bd	UniProtKB/TrEMBL
	Znf_C2H2_sf	UniProtKB/TrEMBL
KEGG Report	rno:686412	UniProtKB/TrEMBL
NCBI Gene	686412	ENTREZGENE
PANTHER	SAL-LIKE PROTEIN	UniProtKB/TrEMBL
	SAL-LIKE PROTEIN 4	UniProtKB/TrEMBL
Pfam	zf-C2H2	UniProtKB/TrEMBL
PhenoGen	Sall4	PhenoGen
PROSITE	ZINC_FINGER_C2H2_1	UniProtKB/TrEMBL
	ZINC_FINGER_C2H2_2	UniProtKB/TrEMBL
SMART	ZnF_C2H2	UniProtKB/TrEMBL
Superfamily-SCOP	SSF57667	UniProtKB/TrEMBL
UniProt	A6JXQ3	ENTREZGENE, UniProtKB/TrEMBL
	M0RBK6_RAT	UniProtKB/TrEMBL
	M0RDM1	ENTREZGENE, UniProtKB/TrEMBL

Nomenclature History

Date	Current Symbol	Current Name	Previous Symbol	Previous Name	Description	Reference	Status
2013-11-11	Sall4	spalt-like transcription factor 4	Sall4	sal-like 4 (Drosophila)	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2013-08-16	Sall4	sal-like 4 (Drosophila)	LOC686412	similar to sal-like 4 isoform a	Nomenclature updated to reflect human and mouse nomenclature	1299863	APPROVED
2006-11-20	LOC686412	similar to sal-like 4 isoform a			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)

Imported Disease Annotations - ClinVar

Imported Disease Annotations - CTD

Imported Disease Annotations - MGI

Imported Disease Annotations - OMIM

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Imported Disease Annotations - ClinVar

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