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

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Pathways
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
Black Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: GRCr8 - GRCr8 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81967,425,311 - 67,437,830 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1967,425,157 - 67,434,268 (-)EnsemblGRCr8
mRatBN7.21950,516,771 - 50,529,295 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1950,516,771 - 50,523,486 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1957,311,968 - 57,318,658 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01957,991,700 - 57,998,415 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,210,589 - 60,217,281 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,276,211 - 55,290,031 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,277,549 - 55,284,663 (-)Ensemblrn6Rnor6.0
Rnor_5.01965,987,197 - 65,999,302 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41952,742,687 - 52,749,406 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1949,756,250 - 49,762,965 (-)NCBICelera
RGSC_v3.11952,748,224 - 52,758,577 (-)NCBI
Cytogenetic Map19q12NCBI
JBrowse:




Disease Annotations     Click to see Annotation Detail View

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 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1967,425,157 - 67,434,268 (-)EnsemblGRCr8
mRatBN7.21950,516,771 - 50,529,295 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1950,516,771 - 50,523,486 (-)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1957,311,968 - 57,318,658 (-)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01957,991,700 - 57,998,415 (-)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01960,210,589 - 60,217,281 (-)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01955,276,211 - 55,290,031 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1955,277,549 - 55,284,663 (-)Ensemblrn6Rnor6.0
Rnor_5.01965,987,197 - 65,999,302 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41952,742,687 - 52,749,406 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1949,756,250 - 49,762,965 (-)NCBICelera
RGSC_v3.11952,748,224 - 52,758,577 (-)NCBI
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 (-)Ensemblhg38GRCh38
GRCh371688,744,096 - 88,752,915 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 361687,271,591 - 87,280,383 (-)NCBIBuild 36Build 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 EnsemblGRCm39
GRCm388122,454,204 - 122,460,809 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl8122,454,208 - 122,460,733 (-)Ensemblmm10GRCm38
MGSCv378124,978,106 - 124,984,592 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
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 (-)Ensembl
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 (-)EnsemblpanPan2panpan1.1
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 (+)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha564,672,369 - 64,681,055 (+)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.0564,881,091 - 64,889,785 (+)NCBIROS_Cfam_1.0ROS_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_1.0UU_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 (+)EnsemblSpeTri2.0 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 (+)EnsemblsusScr11Sscrofa11.1
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_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_004624746891,212 - 897,743 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Snai3
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11742,093,452 - 42,100,053 (-)NCBIRrattus_CSIRO_v1

miRNA Target Status (No longer updated)

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 (GRCr8)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
631840Niddm38Non-insulin dependent diabetes mellitus QTL 383.86blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)191032907674246245Rat
724546Kidm3Kidney mass QTL 33.1kidney mass (VT:0002707)calculated kidney weight (CMO:0000160)194622677874246245Rat
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
2313395Anxrr26Anxiety related response QTL 26aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)194438513474246245Rat
1578764Stresp19Stress response QTL 193.60.001blood renin amount (VT:0003349)plasma renin activity level (CMO:0000116)193253961574246245Rat
5135224Leukc1Leukocyte quantity QTL 1eosinophil quantity (VT:0002602)blood eosinophil count (CMO:0000033)196124916174246245Rat
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
7247442Uae39Urinary albumin excretion QTL 39urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)19219431774246245Rat
1549835Tcas7Tongue tumor susceptibility QTL 70.001tongue integrity trait (VT:0010553)squamous cell carcinoma of the head and neck tumor number (CMO:0001876)194172254674246245Rat
724566Uae12Urinary albumin excretion QTL 125urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)19219431774246245Rat


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
14 12 60 145 73 72 41 84 41 6 309 176 10 124 70 90 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000018387   ⟹   ENSRNOP00000018387
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1967,425,311 - 67,431,634 (-)Ensembl
mRatBN7.2 Ensembl1950,516,771 - 50,523,486 (-)Ensembl
Rnor_6.0 Ensembl1955,277,549 - 55,284,663 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000145778   ⟹   ENSRNOP00000108282
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1967,425,157 - 67,432,843 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000154954   ⟹   ENSRNOP00000110842
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1967,425,311 - 67,434,268 (-)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
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:
Ensembl 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
- UniProtKB: A6IZS1 (UniProtKB/TrEMBL),   D3ZYQ2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134136   ⟸   XM_063278066
- Peptide Label: isoform X3
- UniProtKB: A6IZS1 (UniProtKB/TrEMBL),   D3ZYQ2 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_063134138   ⟸   XM_063278068
- Peptide Label: isoform X5
Ensembl Acc Id: ENSRNOP00000108282   ⟸   ENSRNOT00000145778
Ensembl Acc Id: ENSRNOP00000110842   ⟸   ENSRNOT00000154954
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
  ENSRNOT00000018387.8 UniProtKB/TrEMBL
  ENSRNOT00000145778.1 UniProtKB/TrEMBL
  ENSRNOT00000154954 ENTREZGENE
  ENSRNOT00000154954.1 UniProtKB/TrEMBL
Gene3D-CATH Classic Zinc Finger UniProtKB/TrEMBL
InterPro Snail/Krueppel_Znf UniProtKB/TrEMBL
  Znf_C2H2/integrase_DNA-bd UniProtKB/TrEMBL
  Znf_C2H2_sf UniProtKB/TrEMBL
KEGG Report rno:307919 UniProtKB/TrEMBL
NCBI Gene 307919 ENTREZGENE
PANTHER ZINC FINGER PROTEIN UniProtKB/TrEMBL
  ZINC FINGER PROTEIN SNAI3 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 A0ABK0LCD7_RAT UniProtKB/TrEMBL
  A0ABK0LJ05_RAT UniProtKB/TrEMBL
  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