Sall1 (spalt-like transcription factor 1) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Behavioral & Substance Use Disorder Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Advanced Search (OLGA)
Gene: Sall1 (spalt-like transcription factor 1) Rattus norvegicus
Analyze
Symbol: Sall1
Name: spalt-like transcription factor 1
RGD ID: 1309916
Description: Predicted to enable several functions, including DNA-binding transcription factor activity, RNA polymerase II-specific; beta-catenin binding activity; and cis-regulatory region sequence-specific DNA binding activity. Predicted to be involved in several processes, including forebrain development; negative regulation of ectoderm development; and regulation of DNA-templated transcription. Predicted to act upstream of or within several processes, including limb morphogenesis; metanephric nephron morphogenesis; and regulation of transcription by RNA polymerase II. Predicted to be located in chromocenter; cytoplasm; and heterochromatin. Predicted to be part of NuRD complex. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in Townes-Brocks syndrome; middle lobe syndrome; and renal Wilms' tumor. Orthologous to human SALL1 (spalt like transcription factor 1); INTERACTS WITH 17beta-estradiol; 2,4-dinitrotoluene; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC307740; sal-like 1; sal-like 1 (Drosophila); sal-like protein 1
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Allele / Splice: Sall1em1Nips ; Sall1tm4(tdTomato)Nips
Genetic Models: WI-Sall1em1Nips ; WI;WDB-Sall1tm4(tdTomato)Nips
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81934,179,316 - 34,196,278 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1934,181,078 - 34,196,278 (+)EnsemblGRCr8
mRatBN7.21918,005,782 - 18,022,705 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1918,007,503 - 18,022,705 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1919,687,226 - 19,702,424 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01924,881,820 - 24,897,018 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01927,838,998 - 27,854,185 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01923,387,737 - 23,405,025 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1923,389,375 - 23,405,039 (+)Ensemblrn6Rnor6.0
Rnor_5.01934,377,838 - 34,395,131 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41919,277,337 - 19,293,298 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1917,896,753 - 17,911,869 (+)NCBICelera
RGSC_v3.11919,283,733 - 19,298,618 (+)NCBI
Cytogenetic Map19p11NCBI
JBrowse:




Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
(1->4)-beta-D-glucan  (ISO)
1,2-dimethylhydrazine  (ISO)
17beta-estradiol  (EXP,ISO)
2,3,7,8-tetrachlorodibenzodioxine  (ISO)
2,4-dinitrotoluene  (EXP)
2,6-dinitrotoluene  (EXP)
2-palmitoylglycerol  (ISO)
4,4'-diaminodiphenylmethane  (ISO)
4,4'-sulfonyldiphenol  (ISO)
4-hydroxyphenyl retinamide  (ISO)
5-aza-2'-deoxycytidine  (ISO)
6-propyl-2-thiouracil  (EXP)
acrylamide  (ISO)
aflatoxin B1  (ISO)
amitrole  (EXP)
aristolochic acid A  (ISO)
arsenite(3-)  (ISO)
azathioprine  (ISO)
benzo[a]pyrene  (ISO)
benzo[a]pyrene diol epoxide I  (ISO)
bis(2-ethylhexyl) phthalate  (ISO)
bisphenol A  (EXP,ISO)
buspirone  (EXP)
cadmium atom  (ISO)
cadmium dichloride  (EXP,ISO)
caffeine  (ISO)
carbamazepine  (ISO)
choline  (ISO)
clobetasol  (ISO)
copper atom  (EXP)
copper(0)  (EXP)
copper(II) sulfate  (ISO)
cyclophosphamide  (ISO)
cyclosporin A  (ISO)
dichloromethane  (ISO)
dicrotophos  (ISO)
dieldrin  (EXP)
dorsomorphin  (ISO)
ethanol  (ISO)
flutamide  (EXP)
folic acid  (ISO)
fonofos  (ISO)
FR900359  (ISO)
fulvestrant  (ISO)
furan  (EXP)
genistein  (ISO)
indometacin  (ISO)
inulin  (ISO)
L-methionine  (ISO)
lipopolysaccharide  (ISO)
metformin  (EXP)
methapyrilene  (EXP)
methimazole  (EXP)
methylmercury chloride  (ISO)
nefazodone  (EXP)
paracetamol  (ISO)
parathion  (ISO)
perfluorooctane-1-sulfonic acid  (ISO)
phenobarbital  (ISO)
phenylmercury acetate  (ISO)
pregnenolone 16alpha-carbonitrile  (EXP)
quercetin  (ISO)
raloxifene  (ISO)
rotenone  (ISO)
S-(1,2-dichlorovinyl)-L-cysteine  (ISO)
SB 431542  (ISO)
sodium arsenite  (ISO)
sulfadimethoxine  (EXP)
tamoxifen  (ISO)
terbufos  (ISO)
tetrachloromethane  (EXP)
thioacetamide  (EXP)
titanium dioxide  (ISO)
trichloroethene  (EXP)
trichostatin A  (ISO)
triclosan  (ISO)
triphenyl phosphate  (EXP)
tris(2-butoxyethyl) phosphate  (ISO)
urethane  (ISO)
valproic acid  (ISO)
venlafaxine hydrochloride  (ISO)
vinclozolin  (EXP)
zinc atom  (ISO)
zinc dichloride  (ISO)
zinc(0)  (ISO)

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process
adrenal gland development  (IEA,ISO)
biological_process  (ND)
branching involved in ureteric bud morphogenesis  (ISO)
DNA-templated transcription  (IEA)
embryonic digestive tract development  (IEA,ISO)
embryonic digit morphogenesis  (IEA,ISO)
forelimb morphogenesis  (IEA,ISO)
gonad development  (IEA,ISO)
heart development  (IEA,ISO)
hindlimb morphogenesis  (IEA,ISO)
inductive cell-cell signaling  (ISO)
kidney development  (IEA,ISO)
kidney epithelium development  (ISO)
limb development  (IEA,ISO)
mesenchymal stem cell maintenance involved in metanephric nephron morphogenesis  (ISO)
mesenchymal to epithelial transition involved in metanephros morphogenesis  (IEA,ISO)
negative regulation of DNA-templated transcription  (IEA,ISO)
negative regulation of ectoderm development  (ISO)
negative regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis  (ISO)
negative regulation of mesoderm development  (ISO)
negative regulation of smoothened signaling pathway  (IEA,ISO)
negative regulation of transcription by RNA polymerase II  (IEA,ISO)
neural tube closure  (ISO)
neural tube development  (ISO)
olfactory bulb development  (ISO)
olfactory bulb interneuron differentiation  (IEA,ISO)
olfactory bulb mitral cell layer development  (IEA,ISO)
olfactory nerve development  (ISO)
pituitary gland development  (IEA,ISO)
positive regulation of branching involved in ureteric bud morphogenesis  (ISO)
positive regulation of DNA-templated transcription  (IEA,ISO)
positive regulation of neuron differentiation  (ISO)
positive regulation of transcription by RNA polymerase II  (IEA,ISO)
positive regulation of Wnt signaling pathway  (IEA,ISO)
regulation of neural precursor cell proliferation  (ISO)
regulation of transcription by RNA polymerase II  (IBA)
smoothened signaling pathway  (IEA)
tube development  (IEA)
ureteric bud development  (ISO)
ureteric bud invasion  (ISO)
ventricular septum development  (ISO)

Cellular Component
chromocenter  (IEA,ISO)
cytoplasm  (IEA,ISO)
heterochromatin  (IEA,ISO)
nucleoplasm  (IEA)
nucleus  (IBA,IEA,ISO)
NuRD complex  (ISO)

References

References - curated
# Reference Title Reference Citation
1. SALL1 mutation analysis in Townes-Brocks syndrome: twelve novel mutations and expansion of the phenotype. Botzenhart EM, etal., Hum Mutat. 2005 Sep;26(3):282.
2. 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.
3. 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.
4. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
5. SALL1 mutations in Townes-Brocks syndrome and related disorders. Kohlhase J Hum Mutat. 2000 Dec;16(6):460-6.
6. Accumulation of malignant renal stem cells is associated with epigenetic changes in normal renal progenitor genes. Metsuyanim S, etal., Stem Cells. 2008 Jul;26(7):1808-17. doi: 10.1634/stemcells.2007-0322. Epub 2008 May 8.
7. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
8. Murine homolog of SALL1 is essential for ureteric bud invasion in kidney development. Nishinakamura R, etal., Development. 2001 Aug;128(16):3105-15. doi: 10.1242/dev.128.16.3105.
9. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
10. GOA pipeline RGD automated data pipeline
11. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
12. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
13. Comprehensive gene review and curation RGD comprehensive gene curation
14. Therapeutic potential of human induced pluripotent stem cells and renal progenitor cells in experimental chronic kidney disease. Ribeiro PC, etal., Stem Cell Res Ther. 2020 Dec 9;11(1):530. doi: 10.1186/s13287-020-02060-4.
Additional References at PubMed
PMID:9425907   PMID:11484202   PMID:11511981   PMID:11836251   PMID:12065233   PMID:12482961   PMID:15158448   PMID:16443351   PMID:16707490   PMID:16790473   PMID:16839447   PMID:16971658  
PMID:17295837   PMID:18024993   PMID:18260139   PMID:18280297   PMID:18470945   PMID:18818376   PMID:19168674   PMID:19942929   PMID:20439720   PMID:21062744   PMID:24550112  


Genomics

Comparative Map Data
Sall1
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81934,179,316 - 34,196,278 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1934,181,078 - 34,196,278 (+)EnsemblGRCr8
mRatBN7.21918,005,782 - 18,022,705 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1918,007,503 - 18,022,705 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1919,687,226 - 19,702,424 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01924,881,820 - 24,897,018 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01927,838,998 - 27,854,185 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01923,387,737 - 23,405,025 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1923,389,375 - 23,405,039 (+)Ensemblrn6Rnor6.0
Rnor_5.01934,377,838 - 34,395,131 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41919,277,337 - 19,293,298 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1917,896,753 - 17,911,869 (+)NCBICelera
RGSC_v3.11919,283,733 - 19,298,618 (+)NCBI
Cytogenetic Map19p11NCBI
SALL1
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381651,135,982 - 51,152,334 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1651,135,982 - 51,152,683 (-)Ensemblhg38GRCh38
GRCh371651,169,893 - 51,185,181 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361649,727,387 - 49,742,684 (-)NCBIBuild 36Build 36hg18NCBI36
Build 341649,727,829 - 49,742,653NCBI
Celera1635,686,254 - 35,701,557 (-)NCBICelera
Cytogenetic Map16q12.1NCBI
HuRef1637,057,983 - 37,073,288 (-)NCBIHuRef
CHM1_11652,577,216 - 52,592,517 (-)NCBICHM1_1
T2T-CHM13v2.01656,933,839 - 56,950,190 (-)NCBIT2T-CHM13v2.0
Sall1
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39889,753,867 - 89,770,790 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl889,753,863 - 89,770,790 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38889,027,242 - 89,044,162 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl889,027,235 - 89,044,162 (-)Ensemblmm10GRCm38
MGSCv37891,551,141 - 91,568,061 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36891,918,348 - 91,932,544 (-)NCBIMGSCv36mm8
Celera893,321,670 - 93,338,514 (-)NCBICelera
Cytogenetic Map8C3NCBI
cM Map843.51NCBI
Sall1
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554339,144,748 - 9,161,171 (-)Ensembl
ChiLan1.0NW_0049554339,146,074 - 9,161,171 (-)NCBIChiLan1.0ChiLan1.0
SALL1
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21860,591,098 - 60,605,700 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11666,506,188 - 66,522,403 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01631,396,399 - 31,412,753 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11650,274,081 - 50,280,239 (-)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1650,274,090 - 50,284,819 (-)EnsemblpanPan2panpan1.1
SALL1
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1264,242,742 - 64,260,021 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl264,243,987 - 64,259,521 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha260,816,127 - 60,833,504 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0264,787,008 - 64,804,401 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl264,787,375 - 64,804,352 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1261,612,959 - 61,630,321 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0262,631,291 - 62,648,633 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0263,519,257 - 63,536,638 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Sall1
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934955,465,986 - 55,483,143 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364754,106,084 - 4,121,413 (-)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049364754,106,663 - 4,121,356 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SALL1
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl633,732,025 - 33,748,704 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1633,731,666 - 33,748,698 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2630,222,502 - 30,239,229 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SALL1
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1536,928,711 - 36,944,158 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl536,927,990 - 36,943,630 (-)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366604739,548,229 - 39,564,556 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sall1
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247575,572,528 - 5,587,617 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046247575,572,510 - 5,587,623 (+)NCBIHetGla 1.0HetGla 1.0hetGla2

Variants

.
Variants in Sall1
62 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:834
Count of miRNA genes:308
Interacting mature miRNAs:399
Transcripts:ENSRNOT00000018629
Prediction methods:Microtar, Miranda, 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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
8552935Pigfal10Plasma insulin-like growth factor 1 level QTL 105.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)19799775052997750Rat
61447Tcas1Tongue tumor susceptibility QTL 16.08tongue integrity trait (VT:0010553)squamous cell carcinoma of the tongue maximum tumor diameter (CMO:0001875)191922068964220689Rat
9590298Uminl5Urine mineral level QTL 53.590.001urine mineral amount (VT:0015086)urine electrolyte level (CMO:0000593)19799775052997750Rat
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)19574806450748064Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)193236531174246245Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)192409397369093973Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat
2303628Vencon9Ventilatory control QTL 90.005respiration trait (VT:0001943)minute ventilation (CMO:0000132)192318858668188586Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
1558656Prcs1Prostate cancer susceptibility QTL 15prostate integrity trait (VT:0010571)percentage of study population developing ventral prostate tumorous lesions during a period of time (CMO:0000943)193128753251431640Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19799775052997750Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19799775052997750Rat
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
1554318Bmd5Bone mineral density QTL 512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)192318858668188586Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)192010930665109306Rat
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)193009938347207961Rat

Markers in Region
RH47686  
Rat AssemblyChrPosition (strand)SourceJBrowse
GRCr81934,196,062 - 34,196,200 (+)Marker Load Pipeline
mRatBN7.21918,022,489 - 18,022,628 (+)MAPPERmRatBN7.2
Rnor_6.01923,404,810 - 23,404,948NCBIRnor6.0
Rnor_5.01934,394,916 - 34,395,054UniSTSRnor5.0
RGSC_v3.41919,294,234 - 19,294,372UniSTSRGSC3.4
Celera1917,911,654 - 17,911,792UniSTS
Cytogenetic Map19p11UniSTS


Genetic Models
This gene Sall1 is modified in the following models/strains:
WI-Sall1em1Nips     WI;WDB-Sall1tm4(tdTomato)Nips    


Expression

RNA-SEQ Expression

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
16 8 67 157 87 85 59 19 59 5 277 115 10 134 81 87 26 12 12

Sequence


Ensembl Acc Id: ENSRNOT00000018629   ⟹   ENSRNOP00000018628
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1934,181,078 - 34,196,278 (+)Ensembl
mRatBN7.2 Ensembl1918,007,503 - 18,022,705 (+)Ensembl
Rnor_6.0 Ensembl1923,389,375 - 23,405,039 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000116977   ⟹   ENSRNOP00000081273
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1918,015,622 - 18,022,705 (+)Ensembl
RefSeq Acc Id: NM_001107415   ⟹   NP_001100885
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81934,181,078 - 34,196,278 (+)NCBI
mRatBN7.21918,007,503 - 18,022,705 (+)NCBI
Rnor_6.01923,389,438 - 23,405,025 (+)NCBI
Rnor_5.01934,377,838 - 34,395,131 (+)NCBI
RGSC_v3.41919,277,337 - 19,293,298 (+)RGD
Celera1917,896,753 - 17,911,869 (+)NCBI
Sequence:
RefSeq Acc Id: XM_006255260   ⟹   XP_006255322
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81934,179,316 - 34,196,278 (+)NCBI
mRatBN7.21918,005,782 - 18,022,705 (+)NCBI
Rnor_6.01923,387,737 - 23,405,025 (+)NCBI
Rnor_5.01934,377,838 - 34,395,131 (+)NCBI
Sequence:
RefSeq Acc Id: XM_039097721   ⟹   XP_038953649
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81934,183,192 - 34,196,278 (+)NCBI
mRatBN7.21918,009,621 - 18,022,705 (+)NCBI
RefSeq Acc Id: XM_063278015   ⟹   XP_063134085
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81934,179,551 - 34,196,278 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001100885 (Get FASTA)   NCBI Sequence Viewer  
  XP_006255322 (Get FASTA)   NCBI Sequence Viewer  
  XP_038953649 (Get FASTA)   NCBI Sequence Viewer  
  XP_063134085 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL87533 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000018628
  ENSRNOP00000018628.4
RefSeq Acc Id: NP_001100885   ⟸   NM_001107415
- UniProtKB: D3ZIF4 (UniProtKB/TrEMBL),   A0A8I5ZSH0 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255322   ⟸   XM_006255260
- Peptide Label: isoform X1
- UniProtKB: D3ZIF4 (UniProtKB/TrEMBL),   A0A8I5ZSH0 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000018628   ⟸   ENSRNOT00000018629
RefSeq Acc Id: XP_038953649   ⟸   XM_039097721
- Peptide Label: isoform X2
- UniProtKB: A6KD93 (UniProtKB/TrEMBL)
Ensembl Acc Id: ENSRNOP00000081273   ⟸   ENSRNOT00000116977
RefSeq Acc Id: XP_063134085   ⟸   XM_063278015
- Peptide Label: isoform X1
- UniProtKB: D3ZIF4 (UniProtKB/TrEMBL),   A0A8I5ZSH0 (UniProtKB/TrEMBL)
Protein Domains
C2H2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZIF4-F1-model_v2 AlphaFold D3ZIF4 1-1315 view protein structure

Transcriptome

eQTL   View at Phenogen
WGCNA   View at Phenogen
Tissue/Strain Expression   View at Phenogen

Promoters
RGD ID:13700993
Promoter ID:EPDNEW_R11516
Type:single initiation site
Name:Sall1_1
Description:spalt-like transcription factor 1
SO ACC ID:SO:0000170
Source:EPDNEW (Eukaryotic Promoter Database, http://epd.vital-it.ch/)
Experiment Methods:Single-end sequencing.
Position:
Rat AssemblyChrPosition (strand)Source
Rnor_6.01923,389,434 - 23,389,494EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309916 AgrOrtholog
BioCyc Gene G2FUF-6290 BioCyc
Ensembl Genes ENSRNOG00000013907 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018629 ENTREZGENE
  ENSRNOT00000018629.9 UniProtKB/TrEMBL
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
InterPro Sal_C2H2-zinc-finger UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:307740 UniProtKB/TrEMBL
NCBI Gene 307740 ENTREZGENE
PANTHER SAL-LIKE PROTEIN UniProtKB/TrEMBL
  SAL-LIKE PROTEIN 1 UniProtKB/TrEMBL
Pfam zf-C2H2 UniProtKB/TrEMBL
  zf-met UniProtKB/TrEMBL
PhenoGen Sall1 PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013907 RatGTEx
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A0A8I5ZSH0 ENTREZGENE
  A6KD93 ENTREZGENE, UniProtKB/TrEMBL
  D3ZIF4 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-11-11 Sall1  spalt-like transcription factor 1  Sall1  sal-like 1 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Sall1  sal-like 1 (Drosophila)   Sall1_predicted  sal-like 1 (Drosophila) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Sall1_predicted  sal-like 1 (Drosophila) (predicted)      Symbol and Name status set to approved 70820 APPROVED