Impg2 (interphotoreceptor matrix proteoglycan 2) - Rat Genome Database

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Gene: Impg2 (interphotoreceptor matrix proteoglycan 2) Rattus norvegicus
Analyze
Symbol: Impg2
Name: interphotoreceptor matrix proteoglycan 2
RGD ID: 708358
Description: Predicted to enable heparin binding activity and hyaluronic acid binding activity. Predicted to be involved in visual perception. Predicted to act upstream of or within extracellular matrix organization; protein localization; and retina morphogenesis in camera-type eye. Predicted to be located in interphotoreceptor matrix. Predicted to be part of receptor complex. Human ortholog(s) of this gene implicated in retinitis pigmentosa 56 and vitelliform macular dystrophy. Orthologous to human IMPG2 (interphotoreceptor matrix proteoglycan 2); INTERACTS WITH 2,3,7,8-tetrachlorodibenzodioxine; bisphenol A; flavonoids.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: Pg10.2; sialoprotein associated with cones and rods proteoglycan; spacrcan
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
mRatBN7.21144,318,836 - 44,418,382 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1144,318,836 - 44,418,382 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1153,102,588 - 53,195,399 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01145,764,196 - 45,857,013 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01144,888,351 - 44,981,173 (-)NCBIRnor_WKY
Rnor_6.01146,615,091 - 46,693,565 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1146,615,200 - 46,693,565 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01149,797,496 - 49,875,529 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41145,267,158 - 45,385,026 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11145,324,746 - 45,442,615 (-)NCBI
Celera1144,082,608 - 44,170,046 (-)NCBICelera
Cytogenetic Map11q12NCBI
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene-Chemical Interaction Annotations     Click to see Annotation Detail View
Gene Ontology Annotations     Click to see Annotation Detail View

Biological Process

Cellular Component

Molecular Function
heparin binding  (IBA,IEA,ISO)
hyaluronic acid binding  (IBA,IEA,ISO)

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. OMIM Disease Annotation Pipeline OMIM Disease Annotation Pipeline
4. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
5. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
6. Sequence analysis of PG10.2, a gene expressed in the pineal gland and the outer nuclear layer of the retina. Wang X, etal., Brain Res Mol Brain Res 1996 Sep 5;41(1-2):269-78.
Additional References at PubMed
PMID:15044457   PMID:23382219  


Genomics

Comparative Map Data
Impg2
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
mRatBN7.21144,318,836 - 44,418,382 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1144,318,836 - 44,418,382 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1153,102,588 - 53,195,399 (-)NCBIRnor_SHR
UTH_Rnor_SHRSP_BbbUtx_1.01145,764,196 - 45,857,013 (-)NCBIRnor_SHRSP
UTH_Rnor_WKY_Bbb_1.01144,888,351 - 44,981,173 (-)NCBIRnor_WKY
Rnor_6.01146,615,091 - 46,693,565 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1146,615,200 - 46,693,565 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01149,797,496 - 49,875,529 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41145,267,158 - 45,385,026 (-)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11145,324,746 - 45,442,615 (-)NCBI
Celera1144,082,608 - 44,170,046 (-)NCBICelera
Cytogenetic Map11q12NCBI
IMPG2
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh383101,222,546 - 101,320,575 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p13 Ensembl3101,222,546 - 101,320,575 (-)EnsemblGRCh38hg38GRCh38
GRCh373100,941,390 - 101,039,419 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 363102,427,978 - 102,522,109 (-)NCBINCBI36Build 36hg18NCBI36
Build 343102,427,977 - 102,522,109NCBI
Celera399,336,927 - 99,431,029 (-)NCBICelera
Cytogenetic Map3q12.3NCBI
HuRef398,310,078 - 98,408,005 (-)NCBIHuRef
CHM1_13100,904,435 - 101,002,378 (-)NCBICHM1_1
T2T-CHM13v2.03103,928,482 - 104,026,449 (-)NCBIT2T-CHM13v2.0
Impg2
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm391656,019,447 - 56,094,119 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl1656,024,676 - 56,094,119 (+)EnsemblGRCm39 Ensembl
GRCm381656,203,839 - 56,273,753 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl1656,204,313 - 56,273,756 (+)EnsemblGRCm38mm10GRCm38
MGSCv371656,204,426 - 56,273,866 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv361656,129,264 - 56,198,704 (+)NCBIMGSCv36mm8
Celera1656,513,770 - 56,586,681 (+)NCBICelera
Cytogenetic Map16C1.1NCBI
Impg2
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049554272,826,457 - 2,919,282 (-)EnsemblChiLan1.0
ChiLan1.0NW_0049554272,825,940 - 2,919,282 (-)NCBIChiLan1.0ChiLan1.0
IMPG2
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
PanPan1.13105,005,029 - 105,098,122 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl3105,005,553 - 105,097,902 (-)Ensemblpanpan1.1panPan2
Mhudiblu_PPA_v0398,325,379 - 98,418,344 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
IMPG2
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1337,706,069 - 7,785,817 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl337,709,683 - 7,785,309 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha337,857,507 - 7,940,480 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.0337,842,019 - 7,924,899 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl337,848,570 - 7,924,188 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1337,730,507 - 7,813,125 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0337,776,490 - 7,858,926 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0338,116,576 - 8,198,496 (-)NCBIUU_Cfam_GSD_1.0
Impg2
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024405602149,085,104 - 149,174,028 (+)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049366301,982,783 - 2,071,953 (+)EnsemblSpeTri2.0
SpeTri2.0NW_0049366301,982,860 - 2,069,472 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
IMPG2
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl13157,675,265 - 157,759,266 (+)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.113157,672,973 - 157,763,817 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.213167,156,425 - 167,213,189 (+)NCBISscrofa10.2Sscrofa10.2susScr3
IMPG2
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.12279,560,987 - 79,664,906 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl2279,561,498 - 79,660,472 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366604186,901,526 - 86,998,968 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Impg2
(Heterocephalus glaber - naked mole-rat)
Naked Mole-rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462478915,060,525 - 15,175,617 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462478915,056,692 - 15,184,385 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Impg2
376 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:45
Count of miRNA genes:42
Interacting mature miRNAs:43
Transcripts:ENSRNOT00000044900
Prediction methods:Miranda, Rnahybrid
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
1300147Bp187Blood pressure QTL 1873.67arterial blood pressure trait (VT:2000000)blood pressure time series experimental set point of the baroreceptor response (CMO:0002593)11169446234Rat
1558659Tescar1Testicular tumor resistance QTL 13.9testis integrity trait (VT:0010572)percentage of study population developing testis tumors during a period of time (CMO:0001261)11104193166113562Rat
1641927Alcrsp10Alcohol response QTL 10alcohol metabolism trait (VT:0015089)blood ethanol level (CMO:0000535)11843667453436674Rat
724554Iddm17Insulin dependent diabetes mellitus QTL 170.001blood glucose amount (VT:0000188)blood glucose level (CMO:0000046)111897620886241447Rat
10058952Gmadr6Adrenal mass QTL 62.290.0072adrenal gland mass (VT:0010420)both adrenal glands wet weight to body weight ratio (CMO:0002411)112295940367959403Rat
8694376Bw156Body weight QTL 1562.250.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
9590313Scort20Serum corticosterone level QTL 206.510.001blood corticosterone amount (VT:0005345)plasma corticosterone level (CMO:0001173)112328045668280456Rat
9589032Epfw10Epididymal fat weight QTL 109.290.001epididymal fat pad mass (VT:0010421)epididymal fat pad weight to body weight ratio (CMO:0000658)112328045668280456Rat
8694424Bw162Body weight QTL 1623.80.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)112328045668280456Rat
724563Uae10Urinary albumin excretion QTL 106urine albumin amount (VT:0002871)urine albumin level (CMO:0000130)112767241082846715Rat
1300130Rf20Renal function QTL 204.44kidney glomerulus integrity trait (VT:0010546)kidney glomerulus diameter (CMO:0001166)112952841860324829Rat
1300110Stl7Serum triglyceride level QTL 74.64blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)112952841882566702Rat
2298551Neuinf10Neuroinflammation QTL 103.7nervous system integrity trait (VT:0010566)spinal cord beta-2 microglobulin mRNA level (CMO:0002125)113123913478851519Rat
70180BpQTLcluster10Blood pressure QTL cluster 103.19arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)113491804179918041Rat
1300135Rf19Renal function QTL 193.38blood creatinine amount (VT:0005328)creatinine clearance (CMO:0000765)114094618882566702Rat
2312566Glom20Glomerulus QTL 203.60.001kidney glomerulus morphology trait (VT:0005325)index of glomerular damage (CMO:0001135)114428575982566702Rat


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

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 10 14 49 1 16 8
Below cutoff 31 26 20 5 20 8 8 23 33 25 3 8

Sequence


Reference Sequences
RefSeq Acc Id: ENSRNOT00000044900   ⟹   ENSRNOP00000046981
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1144,318,836 - 44,418,382 (-)Ensembl
Rnor_6.0 Ensembl1146,615,200 - 46,693,565 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000094394   ⟹   ENSRNOP00000092307
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1144,318,836 - 44,418,382 (-)Ensembl
RefSeq Acc Id: ENSRNOT00000103062   ⟹   ENSRNOP00000083635
RefSeq Status:
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1144,321,439 - 44,418,382 (-)Ensembl
RefSeq Acc Id: NM_139088   ⟹   NP_620788
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.21144,318,836 - 44,418,382 (-)NCBI
Rnor_6.01146,615,200 - 46,693,565 (-)NCBI
Rnor_5.01149,797,496 - 49,875,529 (-)NCBI
RGSC_v3.41145,267,158 - 45,385,026 (-)RGD
Celera1144,082,608 - 44,170,046 (-)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_620788 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAC52891 (Get FASTA)   NCBI Sequence Viewer  
  EDM11049 (Get FASTA)   NCBI Sequence Viewer  
  EDM11050 (Get FASTA)   NCBI Sequence Viewer  
  P70628 (Get FASTA)   NCBI Sequence Viewer  
Reference Sequences
RefSeq Acc Id: NP_620788   ⟸   NM_139088
- Peptide Label: precursor
- UniProtKB: F1LNC8 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000046981   ⟸   ENSRNOT00000044900
RefSeq Acc Id: ENSRNOP00000083635   ⟸   ENSRNOT00000103062
RefSeq Acc Id: ENSRNOP00000092307   ⟸   ENSRNOT00000094394
Protein Domains
EGF-like   SEA

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-P70628-F1-model_v2 AlphaFold P70628 1-1241 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:708358 AgrOrtholog
BioCyc Gene G2FUF-21520 BioCyc
Ensembl Genes ENSRNOG00000001622 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Protein ENSRNOP00000046981 ENTREZGENE
  ENSRNOP00000046981.6 UniProtKB/TrEMBL
  ENSRNOP00000083635.1 UniProtKB/TrEMBL
  ENSRNOP00000092307.1 UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000044900 ENTREZGENE
  ENSRNOT00000044900.5 UniProtKB/TrEMBL
  ENSRNOT00000094394.1 UniProtKB/TrEMBL
  ENSRNOT00000103062.1 UniProtKB/TrEMBL
Gene3D-CATH 3.30.70.960 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro EGF-like_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IMPG UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IMPG2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SEA_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SEA_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:245919 UniProtKB/TrEMBL
NCBI Gene 245919 ENTREZGENE
PANTHER PTHR12199 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PTHR12199:SF4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam SEA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Impg2 PhenoGen
PROSITE EGF_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  EGF_3 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SEA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
SMART SEA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF82671 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A8I5ZZQ5_RAT UniProtKB/TrEMBL
  A0A8I6GJN4_RAT UniProtKB/TrEMBL
  F1LNC8 ENTREZGENE, UniProtKB/TrEMBL
  IMPG2_RAT UniProtKB/Swiss-Prot, ENTREZGENE


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2005-07-08 Impg2  interphotoreceptor matrix proteoglycan 2  Pg10.2  PG10.2 protein  Symbol and Name updated 1299863 APPROVED

RGD Curation Notes
Note Type Note Reference
gene_expression expressed only in the pineal gland and the retina outer nuclear layer 1299390