SALL3 (spalt like transcription factor 3) - 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 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   new 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
Gene: SALL3 (spalt like transcription factor 3) Sus scrofa
Analyze
Symbol: SALL3
Name: spalt like transcription factor 3
RGD ID: 14051525
Description: ENCODES a protein that exhibits DNA-binding transcription factor activity, RNA polymerase II-specific (inferred); metal ion binding (inferred); RNA polymerase II cis-regulatory region sequence-specific DNA binding (inferred); INVOLVED IN forelimb morphogenesis (ortholog); hindlimb morphogenesis (ortholog); negative regulation of smoothened signaling pathway (ortholog); ASSOCIATED WITH Burkitt lymphoma (ortholog); Burn-McKeown syndrome (ortholog); chromosome 18q deletion syndrome (ortholog); FOUND IN nucleus (inferred)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: sal-like protein 3
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Squirrel
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: Sscrofa11.1 - Pig Sscrofa11.1 Assembly
Position:
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1146,252,155 - 146,273,906 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11146,251,591 - 146,273,778 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21161,848,298 - 161,853,448 (+)NCBISscrofa10.2Sscrofa10.2susScr3
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component
nucleus  (IBA,IEA)

References
Additional References at PubMed
PMID:30032202  


Genomics

Comparative Map Data
SALL3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1146,252,155 - 146,273,906 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11146,251,591 - 146,273,778 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21161,848,298 - 161,853,448 (+)NCBISscrofa10.2Sscrofa10.2susScr3
SALL3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381878,979,818 - 78,998,969 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1878,979,818 - 79,002,677 (+)EnsemblGRCh38hg38GRCh38
GRCh371876,739,818 - 76,758,969 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361874,841,263 - 74,859,182 (+)NCBINCBI36Build 36hg18NCBI36
Build 341874,841,262 - 74,859,182NCBI
Celera1873,515,295 - 73,533,238 (+)NCBICelera
Cytogenetic Map18q23NCBI
HuRef1873,383,851 - 73,390,883 (+)NCBIHuRef
CHM1_11876,735,495 - 76,754,188 (+)NCBICHM1_1
T2T-CHM13v2.01879,214,396 - 79,233,545 (+)NCBIT2T-CHM13v2.0
Sall3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391881,010,204 - 81,030,236 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1881,009,591 - 81,029,986 (-)EnsemblGRCm39 Ensembl
GRCm381880,966,989 - 80,987,021 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1880,966,376 - 80,986,771 (-)EnsemblGRCm38mm10GRCm38
MGSCv371881,163,098 - 81,183,317 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361881,128,418 - 81,148,637 (-)NCBIMGSCv36mm8
Celera1882,072,332 - 82,092,499 (-)NCBICelera
Cytogenetic Map18E3NCBI
cM Map1854.11NCBI
Sall3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81876,680,997 - 76,700,905 (-)NCBIGRCr8
mRatBN7.21874,406,066 - 74,425,974 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1874,407,560 - 74,426,789 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1876,511,277 - 76,517,554 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01877,180,597 - 77,186,874 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01875,024,901 - 75,031,169 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01877,572,200 - 77,591,710 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1877,573,702 - 77,579,969 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01876,676,425 - 76,694,411 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41877,852,386 - 77,858,653 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11877,907,213 - 77,943,580 (-)NCBI
Celera1873,064,077 - 73,070,344 (-)NCBICelera
Cytogenetic Map18q12.3NCBI
Sall3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495540262,157,970 - 62,163,057 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495540262,157,988 - 62,163,977 (+)NCBIChiLan1.0ChiLan1.0
SALL3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21796,538,861 - 96,561,813 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11882,231,488 - 82,254,437 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01872,381,249 - 72,403,789 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11875,602,465 - 75,620,927 (+)NCBIpanpan1.1PanPan1.1panPan2
SALL3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.111,413,991 - 1,421,516 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl11,416,390 - 1,435,326 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha12,419,588 - 2,438,630 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.011,215,664 - 1,234,710 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl11,217,017 - 1,234,659 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.111,268,216 - 1,287,250 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.011,214,475 - 1,233,517 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.011,385,751 - 1,404,801 (-)NCBIUU_Cfam_GSD_1.0
Sall3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494415,580,440 - 15,601,511 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_004936616901,076 - 922,641 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_004936616903,220 - 922,635 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SALL3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1181,154,033 - 1,174,030 (-)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl181,156,502 - 1,173,946 (-)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366606024,868,578 - 24,891,300 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Sall3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248061,435,617 - 1,454,779 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046248061,432,771 - 1,454,794 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in SALL3
198 total Variants

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

endocrine system nervous system renal system
High
Medium
Low 17 1
Below cutoff 1 4 1

Sequence


Reference Sequences
RefSeq Acc Id: ENSSSCT00000005364   ⟹   ENSSSCP00000005232
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1146,252,155 - 146,273,906 (-)Ensembl
RefSeq Acc Id: ENSSSCT00000037746   ⟹   ENSSSCP00000032124
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.1 Ensembl1146,252,155 - 146,273,906 (-)Ensembl
RefSeq Acc Id: XM_021099018   ⟹   XP_020954677
Type: CODING
Position:
Pig AssemblyChrPosition (strand)Source
Sscrofa11.11146,251,591 - 146,273,778 (-)NCBI
Sequence:
Reference Protein Sequences
RefSeq Acc Id: XP_020954677   ⟸   XM_021099018
- UniProtKB: A0A8D0W220 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSSSCP00000005232   ⟸   ENSSSCT00000005364
RefSeq Acc Id: ENSSSCP00000032124   ⟸   ENSSSCT00000037746
Protein Domains
C2H2-type


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSSCG00000004858 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
  ENSSSCG00025003477 UniProtKB/TrEMBL
  ENSSSCG00030023024 UniProtKB/TrEMBL
  ENSSSCG00035080128 UniProtKB/TrEMBL
  ENSSSCG00040037498 UniProtKB/TrEMBL
  ENSSSCG00050077635 UniProtKB/TrEMBL
  ENSSSCG00055027934 UniProtKB/TrEMBL
  ENSSSCG00060045963 UniProtKB/TrEMBL
Ensembl Transcript ENSSSCT00000005364 ENTREZGENE
  ENSSSCT00000005364.5 UniProtKB/TrEMBL
  ENSSSCT00000037746.3 UniProtKB/TrEMBL
  ENSSSCT00025004581.1 UniProtKB/TrEMBL
  ENSSSCT00030031962.1 UniProtKB/TrEMBL
  ENSSSCT00030031970.1 UniProtKB/TrEMBL
  ENSSSCT00030031974.1 UniProtKB/TrEMBL
  ENSSSCT00035109651.1 UniProtKB/TrEMBL
  ENSSSCT00040050414.1 UniProtKB/TrEMBL
  ENSSSCT00040050774.1 UniProtKB/TrEMBL
  ENSSSCT00050106869.1 UniProtKB/TrEMBL
  ENSSSCT00050106870.1 UniProtKB/TrEMBL
  ENSSSCT00055055278.1 UniProtKB/TrEMBL
  ENSSSCT00060062344.1 UniProtKB/TrEMBL
  ENSSSCT00060062350.1 UniProtKB/TrEMBL
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
InterPro Znf_C2H2_sf UniProtKB/TrEMBL
  Znf_C2H2_type UniProtKB/TrEMBL
NCBI Gene SALL3 ENTREZGENE
PANTHER FI23031P1-RELATED UniProtKB/TrEMBL
  SAL-LIKE PROTEIN UniProtKB/TrEMBL
  SAL-LIKE PROTEIN 3 UniProtKB/TrEMBL
Pfam zf-C2H2 UniProtKB/TrEMBL
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A0A286ZKN0_PIG UniProtKB/TrEMBL
  A0A8D0W220 ENTREZGENE, UniProtKB/TrEMBL
  A0A8D1EGW7_PIG UniProtKB/TrEMBL
  A0A8D1P3R5_PIG UniProtKB/TrEMBL
  A0A8D1VPC1_PIG UniProtKB/TrEMBL
  F1SNN6_PIG UniProtKB/TrEMBL
VGNC ID VGNC:92563 ENTREZGENE