Izumo4 (IZUMO family member 4) - Rat Genome Database

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Gene: Izumo4 (IZUMO family member 4) Rattus norvegicus
Analyze
Symbol: Izumo4
Name: IZUMO family member 4
RGD ID: 1564722
Description: Orthologous to human IZUMO4 (IZUMO family member 4); INTERACTS WITH (+)-schisandrin B; 1-naphthyl isothiocyanate; endosulfan.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: izumo sperm-egg fusion protein 4; LOC362832; RGD1564722; similar to C19orf36 protein
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
GRCr879,657,975 - 9,661,699 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl79,657,203 - 9,660,794 (-)EnsemblGRCr8
mRatBN7.279,007,276 - 9,010,428 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl79,007,280 - 9,010,032 (-)EnsemblmRatBN7.2
Rnor_6.0711,873,884 - 11,878,624 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl711,875,846 - 11,878,237 (-)Ensemblrn6Rnor6.0
Rnor_5.0712,040,461 - 12,045,876 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4710,517,788 - 10,520,408 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera77,188,255 - 7,192,995 (-)NCBICelera
Cytogenetic Map7q11NCBI
JBrowse:




References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:21630459  


Genomics

Comparative Map Data
Izumo4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr879,657,975 - 9,661,699 (-)NCBIGRCr8GRCr8GRCr8
GRCr8 Ensembl79,657,203 - 9,660,794 (-)EnsemblGRCr8
mRatBN7.279,007,276 - 9,010,428 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl79,007,280 - 9,010,032 (-)EnsemblmRatBN7.2
Rnor_6.0711,873,884 - 11,878,624 (-)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl711,875,846 - 11,878,237 (-)Ensemblrn6Rnor6.0
Rnor_5.0712,040,461 - 12,045,876 (-)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4710,517,788 - 10,520,408 (-)NCBIRGSC_v3.4RGSC_v3.4rn4
Celera77,188,255 - 7,192,995 (-)NCBICelera
Cytogenetic Map7q11NCBI
IZUMO4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38192,096,915 - 2,099,590 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl192,096,429 - 2,099,593 (+)Ensemblhg38GRCh38
GRCh37192,096,914 - 2,099,589 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36192,047,868 - 2,050,583 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34192,047,867 - 2,050,583NCBI
Celera192,031,621 - 2,034,336 (+)NCBICelera
Cytogenetic Map19p13.3NCBI
HuRef191,869,152 - 1,871,867 (+)NCBIHuRef
CHM1_1192,096,738 - 2,099,453 (+)NCBICHM1_1
T2T-CHM13v2.0192,069,970 - 2,072,645 (+)NCBIT2T-CHM13v2.0
Izumo4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391080,537,858 - 80,541,216 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1080,538,018 - 80,541,207 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm381080,702,015 - 80,705,382 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1080,702,184 - 80,705,373 (+)Ensemblmm10GRCm38
MGSCv371080,165,438 - 80,168,127 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv361080,105,313 - 80,108,501 (+)NCBIMGSCv36mm8
Celera1081,721,074 - 81,723,763 (+)NCBICelera
Cytogenetic Map10C1NCBI
cM Map1039.72NCBI
Izumo4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554956,015,038 - 6,018,162 (-)Ensembl
ChiLan1.0NW_0049554956,014,852 - 6,018,342 (-)NCBIChiLan1.0ChiLan1.0
IZUMO4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2206,478,657 - 6,481,419 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1195,709,421 - 5,712,172 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0191,106,258 - 1,109,009 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1192,080,204 - 2,082,944 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 Ensembl192,080,205 - 2,082,944 (+)EnsemblpanPan2panpan1.1
IZUMO4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.12056,933,644 - 56,936,171 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl2056,933,646 - 56,936,163 (-)EnsemblcanFam3CanFam3.1
Dog10K_Boxer_Tasha2056,728,630 - 56,731,174 (-)NCBIDog10K_Boxer_TashaDog10K_Boxer_Tasha
ROS_Cfam_1.02057,666,470 - 57,669,014 (-)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl2057,666,472 - 57,668,989 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.12056,718,417 - 56,720,963 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.02057,203,579 - 57,206,117 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.02057,404,033 - 57,406,580 (-)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Izumo4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405118216,612,343 - 216,614,796 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365881,219,866 - 1,222,455 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365881,220,013 - 1,223,767 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IZUMO4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl276,472,231 - 76,475,170 (-)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1276,472,227 - 76,475,227 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2277,006,980 - 77,009,976 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IZUMO4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.161,897,533 - 1,900,266 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl61,897,573 - 1,900,295 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_0236660816,840,401 - 6,843,139 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Izumo4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046248286,751,884 - 6,754,688 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046248286,751,736 - 6,754,746 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Izumo4
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v11154,178,269 - 154,181,269 (-)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Izumo4
12 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:117
Count of miRNA genes:98
Interacting mature miRNAs:107
Transcripts:ENSRNOT00000049766
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
61410Bw19Body weight QTL 196.20.001body mass (VT:0001259)body weight (CMO:0000012)7166965846669658Rat
1300176Hrtrt10Heart rate QTL 103.19heart pumping trait (VT:2000009)heart rate (CMO:0000002)7123748937Rat
9590102Sffal5Serum free fatty acids level QTL 58.620.001blood free fatty acid amount (VT:0001553)plasma free fatty acids level (CMO:0000546)7721609752216097Rat
2290372Gluco33Glucose level QTL 332.71blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)7131777942Rat
1300149Cm6Cardiac mass QTL 64.09heart mass (VT:0007028)heart left ventricle weight to body weight ratio (CMO:0000530)71104117804Rat
631503Bp102Blood pressure QTL 1021.9arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)7170952746709527Rat
634336Anxrr17Anxiety related response QTL 173.66locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)71509236116977875Rat
9590142Scort5Serum corticosterone level QTL 524.40.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)7132612984Rat
1582260Bw72Body weight QTL 723.20.0043body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582261Bw69Body weight QTL 693.20.0048body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
1582262Bw75Body weight QTL 7530.0038body mass (VT:0001259)body weight (CMO:0000012)7139960528Rat
10059592Kidm45Kidney mass QTL 453.950.025kidney mass (VT:0002707)both kidneys wet weight to body weight ratio (CMO:0000340)7946087754460877Rat
2298550Neuinf6Neuroinflammation QTL 63.3nervous system integrity trait (VT:0010566)spinal cord RT1-B protein level (CMO:0002132)7129716167Rat
724560Plsm3Polydactyly-luxate syndrome (PLS) morphotypes QTL 30.0003tibia length (VT:0004357)tibia length (CMO:0000450)7134650782Rat
7411566Bw136Body weight QTL 13610.40.001body mass (VT:0001259)body weight gain (CMO:0000420)7132612984Rat

Markers in Region
AI550407  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.279,007,547 - 9,007,635 (+)MAPPERmRatBN7.2
Rnor_6.0711,875,889 - 11,875,976NCBIRnor6.0
Rnor_5.0712,043,141 - 12,043,228UniSTSRnor5.0
RGSC_v3.4710,518,060 - 10,518,147UniSTSRGSC3.4
Celera77,190,260 - 7,190,347UniSTS
Cytogenetic Map7q11UniSTS


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 66 162 91 90 59 91 59 6 354 190 11 141 81 92 31 17 17

Sequence


Ensembl Acc Id: ENSRNOT00000049766   ⟹   ENSRNOP00000040709
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl79,657,521 - 9,660,794 (-)Ensembl
mRatBN7.2 Ensembl79,007,284 - 9,010,032 (-)Ensembl
Rnor_6.0 Ensembl711,875,846 - 11,878,237 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000113785   ⟹   ENSRNOP00000081468
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 Ensembl79,657,203 - 9,660,787 (-)Ensembl
mRatBN7.2 Ensembl79,007,280 - 9,010,032 (-)Ensembl
Ensembl Acc Id: ENSRNOT00000115800   ⟹   ENSRNOP00000085709
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl79,008,550 - 9,010,032 (-)Ensembl
RefSeq Acc Id: XM_017595154   ⟹   XP_017450643
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,657,975 - 9,660,595 (-)NCBI
mRatBN7.279,007,276 - 9,010,271 (-)NCBI
Rnor_6.0711,873,884 - 11,878,624 (-)NCBI
Sequence:
RefSeq Acc Id: XM_063264489   ⟹   XP_063120559
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,657,975 - 9,660,595 (-)NCBI
RefSeq Acc Id: XM_063264490   ⟹   XP_063120560
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,660,035 - 9,661,699 (-)NCBI
RefSeq Acc Id: XM_063264491   ⟹   XP_063120561
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,657,975 - 9,660,587 (-)NCBI
RefSeq Acc Id: XM_063264492   ⟹   XP_063120562
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,657,975 - 9,661,129 (-)NCBI
RefSeq Acc Id: XR_010053555
Type: NON-CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr879,657,975 - 9,660,595 (-)NCBI
RefSeq Acc Id: XP_017450643   ⟸   XM_017595154
- Peptide Label: isoform X4
- UniProtKB: A0A8I5ZSN1 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000040709   ⟸   ENSRNOT00000049766
Ensembl Acc Id: ENSRNOP00000085709   ⟸   ENSRNOT00000115800
Ensembl Acc Id: ENSRNOP00000081468   ⟸   ENSRNOT00000113785
RefSeq Acc Id: XP_063120562   ⟸   XM_063264492
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063120559   ⟸   XM_063264489
- Peptide Label: isoform X1
RefSeq Acc Id: XP_063120561   ⟸   XM_063264491
- Peptide Label: isoform X3
RefSeq Acc Id: XP_063120560   ⟸   XM_063264490
- Peptide Label: isoform X2

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D4ABT2-F1-model_v2 AlphaFold D4ABT2 1-227 view protein structure

Transcriptome

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

Promoters
RGD ID:13695024
Promoter ID:EPDNEW_R5533
Type:initiation region
Name:Izumo4_1
Description:IZUMO family member 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_6.0711,878,238 - 11,878,298EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564722 AgrOrtholog
BioCyc Gene G2FUF-34963 BioCyc
Ensembl Genes ENSRNOG00000031950 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000049766 ENTREZGENE
  ENSRNOT00000049766.6 UniProtKB/TrEMBL
  ENSRNOT00000113785.2 UniProtKB/TrEMBL
InterPro IZUMO UniProtKB/TrEMBL
  Izumo_fusion UniProtKB/TrEMBL
KEGG Report rno:362832 UniProtKB/TrEMBL
NCBI Gene 362832 ENTREZGENE
PANTHER IZUMO SPERM-EGG FUSION PROTEIN 4 UniProtKB/TrEMBL
  IZUMO SPERM-EGG FUSION PROTEIN 4 UniProtKB/TrEMBL
Pfam IZUMO UniProtKB/TrEMBL
PhenoGen Izumo4 PhenoGen
RatGTEx ENSRNOG00000031950 RatGTEx
UniProt A0A8I5ZSN1 ENTREZGENE, UniProtKB/TrEMBL
  A6K8H4_RAT UniProtKB/TrEMBL
  D4ABT2_RAT UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2011-05-26 Izumo4  IZUMO family member 4  RGD1564722  similar to C19orf36 protein  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2008-04-30 RGD1564722  similar to C19orf36 protein   RGD1564722_predicted  similar to C19orf36 protein (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564722_predicted  similar to C19orf36 protein (predicted)  LOC362832  similar to C19orf36 protein  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC362832  similar to C19orf36 protein      Symbol and Name status set to provisional 70820 PROVISIONAL