Zswim4 (zinc finger, SWIM-type containing 4) - Rat Genome Database

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Gene: Zswim4 (zinc finger, SWIM-type containing 4) Rattus norvegicus
Analyze
Symbol: Zswim4
Name: zinc finger, SWIM-type containing 4
RGD ID: 1308020
Description: Orthologous to human ZSWIM4 (zinc finger SWIM-type containing 4); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; DDT.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: LOC304655; zinc finger SWIM domain-containing protein 4; zinc finger, SWIM domain containing 4
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
GRCr81940,832,608 - 40,857,742 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1940,832,635 - 40,857,742 (+)EnsemblGRCr8
mRatBN7.21923,927,845 - 23,952,970 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1923,927,845 - 23,952,970 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1930,748,865 - 30,773,834 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01931,403,274 - 31,428,243 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01933,626,030 - 33,651,011 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01925,320,683 - 25,345,818 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1925,320,683 - 25,345,790 (-)Ensemblrn6Rnor6.0
Rnor_5.01936,296,871 - 36,321,982 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41925,611,610 - 25,636,717 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1923,476,711 - 23,501,818 (+)NCBICelera
RGSC_v3.11925,616,173 - 25,641,542 (+)NCBI
Cytogenetic Map19q11NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

Molecular Function

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. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Zswim4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81940,832,608 - 40,857,742 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl1940,832,635 - 40,857,742 (+)EnsemblGRCr8
mRatBN7.21923,927,845 - 23,952,970 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1923,927,845 - 23,952,970 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_Utx1930,748,865 - 30,773,834 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01931,403,274 - 31,428,243 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01933,626,030 - 33,651,011 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.01925,320,683 - 25,345,818 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1925,320,683 - 25,345,790 (-)Ensemblrn6Rnor6.0
Rnor_5.01936,296,871 - 36,321,982 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.41925,611,610 - 25,636,717 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera1923,476,711 - 23,501,818 (+)NCBICelera
RGSC_v3.11925,616,173 - 25,641,542 (+)NCBI
Cytogenetic Map19q11NCBI
ZSWIM4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381913,795,443 - 13,832,254 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1913,795,398 - 13,832,254 (+)Ensemblhg38GRCh38
GRCh371913,906,257 - 13,943,068 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361913,767,274 - 13,804,044 (+)NCBIBuild 36Build 36hg18NCBI36
Celera1913,800,055 - 13,836,792 (+)NCBICelera
Cytogenetic Map19p13.13-p13.12NCBI
HuRef1913,477,591 - 13,514,565 (+)NCBIHuRef
CHM1_11913,906,752 - 13,943,549 (+)NCBICHM1_1
T2T-CHM13v2.01913,921,625 - 13,958,384 (+)NCBIT2T-CHM13v2.0
Zswim4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39884,937,571 - 84,963,671 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl884,937,307 - 84,963,684 (-)EnsemblGRCm39 EnsemblGRCm39
GRCm38884,210,942 - 84,237,042 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl884,210,678 - 84,237,055 (-)Ensemblmm10GRCm38
MGSCv37886,734,841 - 86,760,941 (-)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36887,101,047 - 87,127,147 (-)NCBIMGSCv36mm8
Celera888,511,020 - 88,537,091 (-)NCBICelera
Cytogenetic Map8C2NCBI
cM Map840.59NCBI
Zswim4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541532,599,285 - 32,618,505 (+)Ensembl
ChiLan1.0NW_00495541532,599,285 - 32,619,580 (+)NCBIChiLan1.0ChiLan1.0
ZSWIM4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22018,725,049 - 18,761,683 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11917,725,888 - 17,762,540 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01913,358,047 - 13,394,866 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11914,090,241 - 14,126,699 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1914,090,241 - 14,125,523 (+)EnsemblpanPan2panpan1.1
ZSWIM4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12048,623,282 - 48,645,658 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2048,623,463 - 48,641,035 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2048,497,203 - 48,519,537 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02049,141,394 - 49,163,685 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2049,141,419 - 49,169,583 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12048,351,869 - 48,374,121 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02048,778,769 - 48,801,055 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02049,021,855 - 49,044,135 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Zswim4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118207,791,091 - 207,811,300 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366592,543,400 - 2,563,806 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049366592,543,406 - 2,563,555 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
ZSWIM4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl265,311,158 - 65,335,531 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1265,311,198 - 65,336,965 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2265,584,952 - 65,610,058 (-)NCBISscrofa10.2Sscrofa10.2susScr3
ZSWIM4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1612,457,953 - 12,483,571 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_0236660747,170,338 - 7,233,559 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Zswim4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249011,120,565 - 1,141,069 (+)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046249011,120,322 - 1,141,147 (+)NCBIHetGla 1.0HetGla 1.0hetGla2
Zswim4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11716,055,775 - 16,081,025 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Zswim4
102 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:514
Count of miRNA genes:248
Interacting mature miRNAs:303
Transcripts:ENSRNOT00000010050
Prediction methods:Microtar, 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
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
724518Uae19Urinary albumin excretion QTL 195.5urine albumin amount (VT:0002871)urine albumin excretion rate (CMO:0000757)192409397369093973Rat
1331737Uae29Urinary albumin excretion QTL 295.5urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)193628974246245Rat
2303628Vencon9Ventilatory control QTL 90.005respiration trait (VT:0001943)minute ventilation (CMO:0000132)192318858668188586Rat
61423Cia14Collagen induced arthritis QTL 143joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)191083361874246245Rat
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
1331788Rf45Renal function QTL 452.818kidney blood vessel physiology trait (VT:0100012)absolute change in renal blood flow rate (CMO:0001168)193177788874246245Rat
9590250Scort11Serum corticosterone level QTL 1123.450.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)19799775052997750Rat
9590090Insglur8Insulin/glucose ratio QTL 810.810.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)19799775052997750Rat
1554318Bmd5Bone mineral density QTL 512.10.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)192318858668188586Rat
1354607Gmadr1Adrenal mass QTL 15.83adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)194072709254856850Rat
2317848Alcrsp21Alcohol response QTL 211.8999999761581420.05response to alcohol trait (VT:0010489)duration of loss of righting reflex (CMO:0002289)192010930665109306Rat
1354600Salc2Saline consumption QTL 29.910.001drinking behavior trait (VT:0001422)saline drink intake rate (CMO:0001627)194072709254856850Rat
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
1354633Bw28Body weight QTL 286.04body mass (VT:0001259)body weight (CMO:0000012)194072709254856850Rat
61407Scl12Serum cholesterol level QTL 120.001blood HDL cholesterol amount (VT:0000184)serum high density lipoprotein cholesterol level (CMO:0000361)193009938347207961Rat


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 12 79 206 91 90 59 141 59 6 432 253 11 193 96 97 31 34 34

Sequence


Ensembl Acc Id: ENSRNOT00000010050   ⟹   ENSRNOP00000010050
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl1940,832,635 - 40,857,742 (+)Ensembl
mRatBN7.2 Ensembl1923,927,845 - 23,952,970 (+)Ensembl
Rnor_6.0 Ensembl1925,320,683 - 25,345,790 (-)Ensembl
RefSeq Acc Id: NM_001107163   ⟹   NP_001100633
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,832,635 - 40,857,742 (+)NCBI
mRatBN7.21923,927,845 - 23,952,970 (+)NCBI
Rnor_6.01925,320,683 - 25,345,790 (-)NCBI
Rnor_5.01936,296,871 - 36,321,982 (-)NCBI
RGSC_v3.41925,611,610 - 25,636,717 (+)RGD
Celera1923,476,711 - 23,501,818 (+)RGD
Sequence:
RefSeq Acc Id: XM_063277966   ⟹   XP_063134036
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81940,832,608 - 40,857,484 (+)NCBI
Protein Sequences
Protein RefSeqs NP_001100633 (Get FASTA)   NCBI Sequence Viewer  
  NP_001417371 (Get FASTA)   NCBI Sequence Viewer  
  XP_063134036 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDL92231 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000108878.1
RefSeq Acc Id: NP_001100633   ⟸   NM_001107163
- Sequence:
Ensembl Acc Id: ENSRNOP00000010050   ⟸   ENSRNOT00000010050
RefSeq Acc Id: XP_063134036   ⟸   XM_063277966
- Peptide Label: isoform X1
Protein Domains
ZSWIM4-8 C-terminal

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZNW6-F1-model_v2 AlphaFold D3ZNW6 1-912 view protein structure

Transcriptome

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

Promoters
RGD ID:13701015
Promoter ID:EPDNEW_R11539
Type:single initiation site
Name:Zswim4_1
Description:zinc finger, SWIM-type containing 4
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_6.01925,345,789 - 25,345,849EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1308020 AgrOrtholog
BioCyc Gene G2FUF-6095 BioCyc
Ensembl Genes ENSRNOG00000007582 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000010050.8 UniProtKB/TrEMBL
InterPro ZSWIM4-8_C UniProtKB/TrEMBL
KEGG Report rno:304655 UniProtKB/TrEMBL
NCBI Gene 304655 ENTREZGENE
PANTHER ZINC FINGER SWIM DOMAIN CONTAINING PROTEIN 4, 5, 6 UniProtKB/TrEMBL
  ZINC FINGER SWIM DOMAIN-CONTAINING PROTEIN 4 UniProtKB/TrEMBL
Pfam ZSWIM4-8_C UniProtKB/TrEMBL
PhenoGen Zswim4 PhenoGen
RatGTEx ENSRNOG00000007582 RatGTEx
UniProt A0ABK0M1X9_RAT UniProtKB/TrEMBL
  A6IYA3 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-09-25 Zswim4  zinc finger, SWIM-type containing 4  Zswim4  zinc finger, SWIM domain containing 4   Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 Zswim4  zinc finger, SWIM domain containing 4   Zswim4_predicted  zinc finger, SWIM domain containing 4 (predicted)  'predicted' is removed 2292626 APPROVED
2005-01-12 Zswim4_predicted  zinc finger, SWIM domain containing 4 (predicted)      Symbol and Name status set to approved 70820 APPROVED