Snai3 (snail family transcriptional repressor 3) - Rat Genome Database

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Gene: Snai3 (snail family transcriptional repressor 3) Rattus norvegicus
Analyze
Symbol: Snai3
Name: snail family transcriptional repressor 3
RGD ID: 1309658
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 negative regulation of transcription by RNA polymerase II. Predicted to act upstream of or within regulation of transcription by RNA polymerase II. Predicted to be located in nucleus. Predicted to be part of transcription regulator complex. Orthologous to human SNAI3 (snail family transcriptional repressor 3); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; acetamide; bisphenol A.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: LOC307919; snail family zinc finger 3; snail homolog 3; snail homolog 3 (Drosophila); zinc finger protein SNAI3
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81967,425,311 - 67,437,830 (-)NCBIGRCr8
mRatBN7.21950,516,771 - 50,529,295 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1950,516,771 - 50,523,486 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1957,311,968 - 57,318,658 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01957,991,700 - 57,998,415 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,210,589 - 60,217,281 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,276,211 - 55,290,031 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,277,549 - 55,284,663 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01965,987,197 - 65,999,302 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41952,742,687 - 52,749,406 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11952,748,224 - 52,758,577 (-)NCBI
Celera1949,756,250 - 49,762,965 (-)NCBICelera
Cytogenetic Map19q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

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:10606664   PMID:16735694  


Genomics

Comparative Map Data
Snai3
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81967,425,311 - 67,437,830 (-)NCBIGRCr8
mRatBN7.21950,516,771 - 50,529,295 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1950,516,771 - 50,523,486 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1957,311,968 - 57,318,658 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01957,991,700 - 57,998,415 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,210,589 - 60,217,281 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,276,211 - 55,290,031 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,277,549 - 55,284,663 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01965,987,197 - 65,999,302 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41952,742,687 - 52,749,406 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11952,748,224 - 52,758,577 (-)NCBI
Celera1949,756,250 - 49,762,965 (-)NCBICelera
Cytogenetic Map19q12NCBI
SNAI3
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381688,677,688 - 88,686,507 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1688,677,688 - 88,686,507 (-)EnsemblGRCh38hg38GRCh38
GRCh371688,744,096 - 88,752,915 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361687,271,591 - 87,280,383 (-)NCBINCBI36Build 36hg18NCBI36
Build 341687,271,591 - 87,280,290NCBI
Celera1673,813,753 - 73,822,552 (-)NCBICelera
Cytogenetic Map16q24.2NCBI
HuRef1674,438,454 - 74,447,255 (-)NCBIHuRef
CHM1_11690,155,427 - 90,164,201 (-)NCBICHM1_1
T2T-CHM13v2.01694,746,814 - 94,755,643 (-)NCBIT2T-CHM13v2.0
Snai3
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm398123,180,943 - 123,187,546 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl8123,180,947 - 123,187,472 (-)EnsemblGRCm39 Ensembl
GRCm388122,454,204 - 122,460,809 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8122,454,208 - 122,460,733 (-)EnsemblGRCm38mm10GRCm38
MGSCv378124,978,106 - 124,984,592 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv368125,340,296 - 125,346,782 (-)NCBIMGSCv36mm8
Celera8126,683,317 - 126,689,803 (-)NCBICelera
Cytogenetic Map8E1NCBI
cM Map871.07NCBI
Snai3
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555412,593,351 - 2,599,175 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049555412,593,530 - 2,599,105 (-)NCBIChiLan1.0ChiLan1.0
SNAI3
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21898,450,841 - 98,460,023 (-)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan116104,362,977 - 104,371,850 (-)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01669,390,929 - 69,400,971 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11689,050,883 - 89,059,704 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1689,051,479 - 89,059,704 (-)Ensemblpanpan1.1panPan2
SNAI3
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1564,661,122 - 64,668,589 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl564,661,190 - 64,667,690 (+)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha564,672,369 - 64,681,055 (+)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0564,881,091 - 64,889,785 (+)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl564,881,047 - 64,887,087 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1564,907,276 - 64,915,954 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0564,738,829 - 64,747,685 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0565,145,011 - 65,153,705 (+)NCBIUU_Cfam_GSD_1.0
Snai3
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440934925,248,159 - 25,254,560 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366411,001,782 - 1,008,106 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049366411,001,788 - 1,007,970 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
SNAI3
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl6988,990 - 996,247 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.16988,975 - 996,268 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
SNAI3
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1574,062,241 - 74,071,840 (-)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660471,616,290 - 1,625,285 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Snai3
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_004624746893,952 - 897,762 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_004624746891,212 - 897,743 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Snai3
43 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:140
Count of miRNA genes:100
Interacting mature miRNAs:120
Transcripts:ENSRNOT00000018387
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.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19218792756457239Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19409615555283277Rat
7411549Bw130Body weight QTL 13050.001body mass (VT:0001259)body weight gain (CMO:0000420)191545586057337602Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)191563020157337602Rat
2298478Eau8Experimental allergic uveoretinitis QTL 80.0163uvea integrity trait (VT:0010551)experimental autoimmune uveitis score (CMO:0001504)191715443357337602Rat
61350Bp32Blood pressure QTL 320.012arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)192048357557337602Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)192932249057337602Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum insulin level (CMO:0000358)193383821455283146Rat
1358200Insglur2Insulin/glucose ratio QTL 24.1blood glucose amount (VT:0000188)serum glucose level (CMO:0000543)193383821455283146Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)194434021455283277Rat
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194997648153225766Rat


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
Low 12 13 1 8 1 8 11 25 2 8
Below cutoff 2 29 30 26 11 26 59 32 15 9

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000018387   ⟹   ENSRNOP00000018387
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1950,516,771 - 50,523,486 (-)Ensembl
Rnor_6.0 Ensembl1955,277,549 - 55,284,663 (-)Ensembl
RefSeq Acc Id: NM_001107439   ⟹   NP_001100909
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,425,311 - 67,432,026 (-)NCBI
mRatBN7.21950,516,771 - 50,523,486 (-)NCBI
Rnor_6.01955,277,900 - 55,284,615 (-)NCBI
Rnor_5.01965,987,197 - 65,999,302 (-)NCBI
RGSC_v3.41952,742,687 - 52,749,406 (-)RGD
Celera1949,756,250 - 49,762,965 (-)RGD
Sequence:
RefSeq Acc Id: XM_006255765   ⟹   XP_006255827
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,425,318 - 67,431,870 (-)NCBI
mRatBN7.21950,516,778 - 50,523,330 (-)NCBI
Rnor_6.01955,276,211 - 55,284,539 (-)NCBI
Rnor_5.01965,987,197 - 65,999,302 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008772611   ⟹   XP_008770833
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,425,318 - 67,437,830 (-)NCBI
mRatBN7.21950,516,778 - 50,529,295 (-)NCBI
Rnor_6.01955,276,211 - 55,290,031 (-)NCBI
Sequence:
RefSeq Acc Id: XM_008772612   ⟹   XP_008770834
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,425,318 - 67,433,860 (-)NCBI
mRatBN7.21950,516,778 - 50,525,312 (-)NCBI
Rnor_6.01955,276,211 - 55,286,538 (-)NCBI
Sequence:
RefSeq Acc Id: XM_039097781   ⟹   XP_038953709
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,425,318 - 67,437,830 (-)NCBI
mRatBN7.21950,516,778 - 50,529,295 (-)NCBI
RefSeq Acc Id: XM_063278066   ⟹   XP_063134136
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,425,318 - 67,433,967 (-)NCBI
RefSeq Acc Id: XM_063278067   ⟹   XP_063134137
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,425,318 - 67,433,967 (-)NCBI
RefSeq Acc Id: XM_063278068   ⟹   XP_063134138
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81967,425,318 - 67,431,377 (-)NCBI
Reference Protein Sequences
RefSeq Acc Id: NP_001100909   ⟸   NM_001107439
- UniProtKB: D3ZYQ2 (UniProtKB/TrEMBL),   A6IZS1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: XP_006255827   ⟸   XM_006255765
- Peptide Label: isoform X4
- Sequence:
RefSeq Acc Id: XP_008770833   ⟸   XM_008772611
- Peptide Label: isoform X1
- Sequence:
RefSeq Acc Id: XP_008770834   ⟸   XM_008772612
- Peptide Label: isoform X3
- UniProtKB: D3ZYQ2 (UniProtKB/TrEMBL),   A6IZS1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000018387   ⟸   ENSRNOT00000018387
RefSeq Acc Id: XP_038953709   ⟸   XM_039097781
- Peptide Label: isoform X2
RefSeq Acc Id: XP_063134137   ⟸   XM_063278067
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063134136   ⟸   XM_063278066
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063134138   ⟸   XM_063278068
- Peptide Label: isoform X5
Protein Domains
C2H2-type

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZYQ2-F1-model_v2 AlphaFold D3ZYQ2 1-287 view protein structure

Transcriptome

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


Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1309658 AgrOrtholog
BioCyc Gene G2FUF-5396 BioCyc
Ensembl Genes ENSRNOG00000013586 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000018387 ENTREZGENE
  ENSRNOT00000018387.7 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:307919 UniProtKB/TrEMBL
NCBI Gene 307919 ENTREZGENE
PANTHER FINGER PROTEIN, PUTATIVE-RELATED UniProtKB/TrEMBL
  KRUEPPEL-LIKE TRANSCRIPTION FACTOR UniProtKB/TrEMBL
Pfam zf-C2H2 UniProtKB/TrEMBL
PhenoGen Snai3 PhenoGen
PROSITE ZINC_FINGER_C2H2_1 UniProtKB/TrEMBL
  ZINC_FINGER_C2H2_2 UniProtKB/TrEMBL
RatGTEx ENSRNOG00000013586 RatGTEx
SMART ZnF_C2H2 UniProtKB/TrEMBL
Superfamily-SCOP SSF57667 UniProtKB/TrEMBL
UniProt A6IZS1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZYQ2 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2016-05-11 Snai3  snail family transcriptional repressor 3  Snai3  snail family zinc finger 3  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2013-06-05 Snai3  snail family zinc finger 3  Snai3  snail homolog 3 (Drosophila)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Snai3  snail homolog 3 (Drosophila)   Snai3_predicted  snail homolog 3 (Drosophila) (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Snai3_predicted  snail homolog 3 (Drosophila) (predicted)      Symbol and Name status set to approved 70820 APPROVED