Igsf23 (immunoglobulin superfamily, member 23) - Rat Genome Database

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Gene: Igsf23 (immunoglobulin superfamily, member 23) Rattus norvegicus
Analyze
Symbol: Igsf23
Name: immunoglobulin superfamily, member 23
RGD ID: 1564357
Description: Predicted to be involved in osteoclast differentiation. Predicted to be located in plasma membrane. Orthologous to human IGSF23 (immunoglobulin superfamily member 23); INTERACTS WITH 17beta-estradiol; 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A.
Type: protein-coding
RefSeq Status: MODEL
Previously known as: immunoglobulin superfamily member 23; LOC502306; mCG54481-like; RGD1564357
RGD Orthologs
Human
Mouse
Bonobo
Dog
Pig
Green Monkey
Alliance Genes
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8188,719,000 - 88,738,391 (-)NCBIGRCr8
mRatBN7.2179,591,059 - 79,606,323 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl179,592,088 - 79,610,438 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0180,850,783 - 80,869,481 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl180,852,528 - 80,864,846 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0182,114,859 - 82,129,942 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4179,242,061 - 79,258,888 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera174,048,848 - 74,067,340 (-)NCBICelera
Cytogenetic Map1q21NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Disease Annotations     Click to see Annotation Detail View

Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

References

References - curated
# Reference Title Reference Citation
1. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions

Genomics

Comparative Map Data
Igsf23
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8188,719,000 - 88,738,391 (-)NCBIGRCr8
mRatBN7.2179,591,059 - 79,606,323 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl179,592,088 - 79,610,438 (-)EnsemblmRatBN7.2 Ensembl
Rnor_6.0180,850,783 - 80,869,481 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl180,852,528 - 80,864,846 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0182,114,859 - 82,129,942 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.4179,242,061 - 79,258,888 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
Celera174,048,848 - 74,067,340 (-)NCBICelera
Cytogenetic Map1q21NCBI
IGSF23
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh381944,613,563 - 44,636,781 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl1944,613,563 - 44,636,781 (+)EnsemblGRCh38hg38GRCh38
GRCh371945,116,873 - 45,140,081 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 361949,808,796 - 49,830,632 (+)NCBINCBI36Build 36hg18NCBI36
Celera1941,920,994 - 41,944,130 (+)NCBICelera
Cytogenetic Map19q13.31NCBI
HuRef1941,549,180 - 41,572,331 (+)NCBIHuRef
CHM1_11945,119,580 - 45,142,731 (+)NCBICHM1_1
T2T-CHM13v2.01947,438,308 - 47,461,513 (+)NCBIT2T-CHM13v2.0
Igsf23
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39719,671,230 - 19,687,579 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl719,671,230 - 19,684,681 (-)EnsemblGRCm39 Ensembl
GRCm38719,937,305 - 19,953,654 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl719,937,305 - 19,950,756 (-)EnsemblGRCm38mm10GRCm38
MGSCv37720,522,654 - 20,536,092 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36719,095,827 - 19,112,176 (-)NCBIMGSCv36mm8
Celera717,343,908 - 17,357,349 (-)NCBICelera
Cytogenetic Map7A3NCBI
cM Map79.95NCBI
IGSF23
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v22050,773,200 - 50,789,230 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan11952,645,192 - 52,668,503 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v01941,570,393 - 41,585,036 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.11950,166,473 - 50,189,982 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl1950,166,473 - 50,188,638 (+)Ensemblpanpan1.1panPan2
IGSF23
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11110,723,496 - 110,735,913 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1110,723,514 - 110,736,730 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1110,204,545 - 110,227,845 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01111,285,838 - 111,309,155 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1111,287,712 - 111,300,224 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11110,927,473 - 110,949,509 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01110,565,442 - 110,586,717 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01111,435,149 - 111,456,386 (-)NCBIUU_Cfam_GSD_1.0
IGSF23
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1651,133,074 - 51,150,820 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2647,048,765 - 47,066,269 (-)NCBISscrofa10.2Sscrofa10.2susScr3
IGSF23
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1638,093,614 - 38,120,993 (+)NCBIChlSab1.1ChlSab1.1chlSab2
Vero_WHO_p1.0NW_02366607317,623,496 - 17,684,829 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0

Variants

.
Variants in Igsf23
299 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:132
Count of miRNA genes:98
Interacting mature miRNAs:106
Transcripts:ENSRNOT00000026006, ENSRNOT00000067615, ENSRNOT00000074412
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1554320Bmd1Bone mineral density QTL 112.20.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)150910886060548Rat
631688Hcas2Hepatocarcinoma susceptibility QTL 230.0001liver integrity trait (VT:0010547)liver tumorous lesion number (CMO:0001068)15925874115540829Rat
2313062Bmd73Bone mineral density QTL 733.90.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)11148131282174945Rat
2313065Bss67Bone structure and strength QTL 673.10.0001tibia area (VT:1000281)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313069Bss68Bone structure and strength QTL 682.90.0001tibia size trait (VT:0100001)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
2313075Bss66Bone structure and strength QTL 663.40.0001tibia length (VT:0004357)tibia length (CMO:0000450)11148131282174945Rat
2313077Bss69Bone structure and strength QTL 693.50.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)11148131282174945Rat
2313092Bmd72Bone mineral density QTL 722.50.0001tibia mineral mass (VT:1000283)total volumetric bone mineral density (CMO:0001728)11148131282174945Rat
2313097Bss70Bone structure and strength QTL 703.50.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)11148131282174945Rat
631495Bp96Blood pressure QTL 964.52arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)122340647102268831Rat
1358359Sradr1Stress Responsive Adrenal Weight QTL 14.74adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)130882023123479925Rat
70225Bp58Blood pressure QTL 583.3arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132356093162846471Rat
1300172Bp172Blood pressure QTL 1723.56arterial blood pressure trait (VT:2000000)diastolic blood pressure (CMO:0000005)13273727390665040Rat
10059597Bp377Blood pressure QTL 3773.420.025arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)132737458199368955Rat
8552900Pigfal1Plasma insulin-like growth factor 1 level QTL 17.4blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13483685879836858Rat
8552948Pigfal11Plasma insulin-like growth factor 1 level QTL 114.7blood insulin-like growth factor amount (VT:0010479)plasma insulin-like growth factor 1 level (CMO:0001299)13483685879836858Rat
9589820Insglur3Insulin/glucose ratio QTL 310.750.001blood insulin amount (VT:0001560)calculated plasma insulin level (CMO:0002170)13483685879836858Rat
2313051Bss57Bone structure and strength QTL 573.70.0001tibia strength trait (VT:1000284)bone polar moment of inertia (CMO:0001558)143284731118944897Rat
2313059Bss55Bone structure and strength QTL 553.20.0001tibia size trait (VT:0100001)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313072Bss53Bone structure and strength QTL 534.30.0001tibia length (VT:0004357)tibia length (CMO:0000450)143284731118944897Rat
2313078Bss54Bone structure and strength QTL 543.50.0001tibia area (VT:1000281)tibia midshaft cross-sectional area (CMO:0001717)143284731118944897Rat
2313094Bss58Bone structure and strength QTL 583.70.0001tibia strength trait (VT:1000284)tibia total energy absorbed before break (CMO:0001736)143284731118944897Rat
2313098Bmd70Bone mineral density QTL 703.60.0001tibia mineral mass (VT:1000283)compact volumetric bone mineral density (CMO:0001730)143284731118944897Rat
2313099Bss56Bone structure and strength QTL 562.40.0001tibia size trait (VT:0100001)tibia midshaft endosteal cross-sectional area (CMO:0001716)143284731118944897Rat
2302059Pia36Pristane induced arthritis QTL 363.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)14333300288333002Rat
2313402Anxrr24Anxiety related response QTL 24aggression-related behavior trait (VT:0015014)tameness/aggressiveness composite score (CMO:0002136)148963584144267916Rat
4889962Bss94Bone structure and strength QTL 943.8tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)14936146582174945Rat
1578649Bmd8Bone mineral density QTL 84.9femur mineral mass (VT:0010011)trabecular volumetric bone mineral density (CMO:0001729)14939317294393172Rat
1578654Bss10Bone structure and strength QTL 104femur morphology trait (VT:0000559)femoral neck cortical cross-sectional area (CMO:0001702)149393172159356837Rat
634314Niddm44Non-insulin dependent diabetes mellitus QTL 44blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)149393289199050459Rat
6903308Scl36Serum cholesterol QTL 3620.0125blood cholesterol amount (VT:0000180)plasma total cholesterol level (CMO:0000585)15386304190532583Rat
4889919Bss86Bone structure and strength QTL 864.1tibia area (VT:1000281)tibia midshaft total cross-sectional area (CMO:0001715)15389511782174945Rat
4889929Bss87Bone structure and strength QTL 876.7tibia area (VT:1000281)tibia-fibula cortical bone endosteal cross-sectional area (CMO:0001722)15389511782174945Rat
61342Bp27Blood pressure QTL 273.40.0006arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)15673266898773277Rat
2300164Bmd44Bone mineral density QTL 445.40.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)156949932101949932Rat
2298545Neuinf8Neuroinflammation QTL 84.6nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)157336763151090257Rat
1300121Hrtrt1Heart rate QTL 13.7heart pumping trait (VT:2000009)heart rate (CMO:0000002)165789093115540829Rat
7421628Bp361Blood pressure QTL 3610.001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)166023617118608521Rat
631512Scl6Serum cholesterol level QTL 69.6blood cholesterol amount (VT:0000180)serum total cholesterol level (CMO:0000363)17219768090508767Rat
1358192Ept13Estrogen-induced pituitary tumorigenesis QTL 133.4pituitary gland mass (VT:0010496)pituitary gland wet weight (CMO:0000853)177494165122494165Rat
10054135Gmadr2Adrenal mass QTL 21.970.0129adrenal gland mass (VT:0010420)both adrenal glands wet weight (CMO:0000164)177857876122857876Rat
1549903Bp267Blood pressure QTL 267arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)177876254106047988Rat
61344Bp29Blood pressure QTL 297.5arterial blood pressure trait (VT:2000000)systolic blood pressure (CMO:0000004)178350581123350581Rat
7411712Strs4Sensitivity to stroke QTL 48.7cerebrum integrity trait (VT:0010549)percentage of study population developing cerebrovascular lesions during a period of time (CMO:0000932)178430536123430536Rat
61433Cia2Collagen induced arthritis QTL 25joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)17843075491209302Rat
1582234Gluco18Glucose level QTL 183.40.0003blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)178479925123479925Rat


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 3
Low 4 4 27 30 6
Below cutoff 3 15 4 13 4 3 4 12 8 8 5 3

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000074412   ⟹   ENSRNOP00000066148
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl179,592,088 - 79,610,438 (-)Ensembl
Rnor_6.0 Ensembl180,852,528 - 80,864,846 (-)Ensembl
RefSeq Acc Id: XM_017590007   ⟹   XP_017445496
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8188,719,000 - 88,738,391 (-)NCBI
mRatBN7.2179,591,059 - 79,606,323 (-)NCBI
Rnor_6.0180,850,783 - 80,869,481 (-)NCBI
Sequence:
Protein Sequences
Protein RefSeqs XP_017445496 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein EDM08125 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000066148
  ENSRNOP00000066148.3
Reference Protein Sequences
RefSeq Acc Id: XP_017445496   ⟸   XM_017590007
- UniProtKB: M0R9H9 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000066148   ⟸   ENSRNOT00000074412
Protein Domains
Ig-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-M0R9H9-F1-model_v2 AlphaFold M0R9H9 1-238 view protein structure

Transcriptome

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

Promoters
RGD ID:13689796
Promoter ID:EPDNEW_R310
Type:multiple initiation site
Name:Igsf23_1
Description:immunoglobulin superfamily, member 23
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_6.0180,864,856 - 80,864,916EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:1564357 AgrOrtholog
BioCyc Gene G2FUF-60479 BioCyc
Ensembl Genes ENSRNOG00000024630 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000074412.4 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/TrEMBL
InterPro Ig-like_dom UniProtKB/TrEMBL
  Ig-like_dom_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
KEGG Report rno:502306 UniProtKB/TrEMBL
NCBI Gene 502306 ENTREZGENE
PANTHER CARCINOEMBRYONIC ANTIGEN-RELATED CELL ADHESION MOLECULE 8 UniProtKB/TrEMBL
  IMMUNOGLOBULIN SUPERFAMILY MEMBER 23 UniProtKB/TrEMBL
PhenoGen Igsf23 PhenoGen
PROSITE IG_LIKE UniProtKB/TrEMBL
RatGTEx ENSRNOG00000024630 RatGTEx
Superfamily-SCOP SSF48726 UniProtKB/TrEMBL
UniProt M0R9H9 ENTREZGENE, UniProtKB/TrEMBL


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-05-24 Igsf23  immunoglobulin superfamily, member 23  LOC100363841  mCG54481-like  Data merged from RGD:2322214 1643240 APPROVED
2011-06-10 Igsf23  immunoglobulin superfamily, member 23  RGD1564357  RGD1564357  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2010-05-06 LOC100363841  mCG54481-like      Symbol and Name status set to provisional 70820 PROVISIONAL
2008-04-30 RGD1564357  RGD1564357   RGD1564357_predicted  RGD1564357 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-07 RGD1564357_predicted  RGD1564357 (predicted)  LOC502306  LOC502306  Symbol and Name status set to approved 1299863 APPROVED
2006-02-09 LOC502306  LOC502306      Symbol and Name status set to provisional 70820 PROVISIONAL