Htra4 (HtrA serine peptidase 4) - Rat Genome Database

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Gene: Htra4 (HtrA serine peptidase 4) Rattus norvegicus
Analyze
Symbol: Htra4
Name: HtrA serine peptidase 4
RGD ID: 1306242
Description: Predicted to enable identical protein binding activity and serine-type endopeptidase activity. Predicted to be involved in positive regulation of apoptotic process; programmed cell death; and proteolysis. Predicted to be located in extracellular region. Orthologous to human HTRA4 (HtrA serine peptidase 4); INTERACTS WITH 17alpha-ethynylestradiol; 2,3,7,8-tetrachlorodibenzodioxine; 2,6-dinitrotoluene.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: high-temperature requirement factor A4; LOC306564; probable serine protease HTRA4; RGD1306242; serine protease HTR4; similar to Probable serine protease HTRA4 precursor
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
Dog
Squirrel
Pig
Green Monkey
Naked Mole-Rat
Alliance Orthologs
More Info more info ...
Latest Assembly: mRatBN7.2 - mRatBN7.2 Assembly
Position:
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81673,704,255 - 73,717,722 (+)NCBIGRCr8
mRatBN7.21667,001,605 - 67,015,074 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1667,001,605 - 67,015,074 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1672,278,796 - 72,292,263 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01675,684,765 - 75,698,232 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01670,931,287 - 70,944,763 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01671,784,819 - 71,802,765 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1671,787,966 - 71,802,763 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01671,438,259 - 71,451,530 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41671,424,709 - 71,438,884 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11671,425,090 - 71,438,477 (+)NCBI
Celera1664,906,135 - 64,919,639 (+)NCBICelera
Cytogenetic Map16q12.4NCBI
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

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. GOA pipeline RGD automated data pipeline
3. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
Additional References at PubMed
PMID:18387192  


Genomics

Comparative Map Data
Htra4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr81673,704,255 - 73,717,722 (+)NCBIGRCr8
mRatBN7.21667,001,605 - 67,015,074 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl1667,001,605 - 67,015,074 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx1672,278,796 - 72,292,263 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.01675,684,765 - 75,698,232 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.01670,931,287 - 70,944,763 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.01671,784,819 - 71,802,765 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl1671,787,966 - 71,802,763 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.01671,438,259 - 71,451,530 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.41671,424,709 - 71,438,884 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.11671,425,090 - 71,438,477 (+)NCBI
Celera1664,906,135 - 64,919,639 (+)NCBICelera
Cytogenetic Map16q12.4NCBI
HTRA4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38838,974,228 - 38,988,663 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl838,974,228 - 38,988,663 (+)EnsemblGRCh38hg38GRCh38
GRCh37838,831,747 - 38,846,182 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36838,950,854 - 38,964,801 (+)NCBINCBI36Build 36hg18NCBI36
Build 34838,950,853 - 38,964,801NCBI
Celera837,783,269 - 37,797,679 (+)NCBICelera
Cytogenetic Map8p11.22NCBI
HuRef837,364,830 - 37,379,022 (+)NCBIHuRef
CHM1_1839,033,728 - 39,048,258 (+)NCBICHM1_1
T2T-CHM13v2.0839,251,369 - 39,265,805 (+)NCBIT2T-CHM13v2.0
Htra4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39825,514,944 - 25,529,160 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl825,514,945 - 25,528,978 (-)EnsemblGRCm39 Ensembl
GRCm38825,024,928 - 25,038,962 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl825,024,929 - 25,038,962 (-)EnsemblGRCm38mm10GRCm38
MGSCv37826,135,400 - 26,149,434 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36826,490,473 - 26,504,507 (-)NCBIMGSCv36mm8
Celera826,491,899 - 26,506,023 (-)NCBICelera
Cytogenetic Map8A2NCBI
cM Map813.7NCBI
Htra4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495546314,525,489 - 14,536,918 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495546314,525,798 - 14,536,948 (+)NCBIChiLan1.0ChiLan1.0
HTRA4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2757,536,623 - 57,551,056 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1833,254,067 - 33,268,537 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0838,275,582 - 38,290,058 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1835,450,447 - 35,465,078 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl835,450,447 - 35,465,078 (+)Ensemblpanpan1.1panPan2
HTRA4
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11626,558,426 - 26,568,570 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1626,558,399 - 26,563,254 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1627,077,924 - 27,089,718 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01628,387,990 - 28,399,796 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1628,388,478 - 28,399,751 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11626,683,757 - 26,693,477 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01627,258,412 - 27,270,186 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01627,296,714 - 27,308,507 (-)NCBIUU_Cfam_GSD_1.0
Htra4
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_02440494349,168,793 - 49,180,461 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049367102,280,714 - 2,292,468 (+)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049367102,280,804 - 2,292,399 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
HTRA4
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.11547,610,580 - 47,625,889 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21554,684,452 - 54,698,832 (-)NCBISscrofa10.2Sscrofa10.2susScr3
HTRA4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1836,991,074 - 37,009,362 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl836,992,958 - 37,008,829 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_0236660524,971,155 - 4,986,218 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Htra4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046247804,620,771 - 4,633,181 (-)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_0046247804,620,040 - 4,633,390 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Htra4
166 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:81
Count of miRNA genes:63
Interacting mature miRNAs:77
Transcripts:ENSRNOT00000022166
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 (mRatBN7.2)
The following QTLs overlap with this region.    Full Report CSV TAB Printer Gviewer
RGD IDSymbolNameLODP ValueTraitSub TraitChrStartStopSpecies
1600378Arunc4Aerobic running capacity QTL 40.03exercise endurance trait (VT:0002332)maximum distance run on treadmill (CMO:0001406)1638024580345693Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor depth of invasion (CMO:0001888)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70205Gcr3Gastric cancer resistance QTL 32.3stomach morphology trait (VT:0000470)stomach tumor diameter (CMO:0001889)161769679182635055Rat
70215Niddm29Non-insulin dependent diabetes mellitus QTL 293.54blood glucose amount (VT:0000188)blood glucose level area under curve (AUC) (CMO:0000350)161900443575226532Rat
8694453Bw172Body weight QTL 1728.330.001retroperitoneal fat pad mass (VT:0010430)retroperitoneal fat pad weight to body weight ratio (CMO:0000635)162432551369325513Rat
6903294Stl30Serum triglyceride level QTL 302.60.0013blood triglyceride amount (VT:0002644)plasma triglyceride level (CMO:0000548)162515279370152793Rat
1578768Stresp22Stress response QTL 222.8thymus mass (VT:0004954)thymus wet weight (CMO:0000855)163528887080288870Rat
2293690Bss45Bone structure and strength QTL 455.130.0001lumbar vertebra morphology trait (VT:0010494)lumbar vertebra cortical cross-sectional area (CMO:0001690)163775215682752156Rat
2300163Bmd64Bone mineral density QTL 645.30.0001lumbar vertebra mineral mass (VT:0010511)volumetric bone mineral density (CMO:0001553)163775215682752156Rat
7205510Activ5Activity QTL 53.780.00028locomotor behavior trait (VT:0001392)number of entries into a discrete space in an experimental apparatus (CMO:0000960)164239634584729064Rat
8694429Bw164Body weight QTL 16450.001body lean mass (VT:0010483)lean tissue morphological measurement (CMO:0002184)165272646484729064Rat
8694364Abfw7Abdominal fat weight QTL 712.220.001visceral adipose mass (VT:0010063)abdominal fat pad weight to body weight ratio (CMO:0000095)165272646484729064Rat
7411648Foco22Food consumption QTL 22150.001eating behavior trait (VT:0001431)feed conversion ratio (CMO:0001312)165272646484729064Rat
631525Pia14Pristane induced arthritis QTL 144.4joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)165571108783402471Rat

Markers in Region
RH128869  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21667,001,148 - 67,001,353 (+)MAPPERmRatBN7.2
Rnor_6.01671,787,510 - 71,787,714NCBIRnor6.0
Rnor_5.01671,437,803 - 71,438,007UniSTSRnor5.0
RGSC_v3.41671,424,253 - 71,424,457UniSTSRGSC3.4
Celera1664,905,679 - 64,905,883UniSTS
RH 3.4 Map16621.71UniSTS
Cytogenetic Map16q12.4UniSTS
AI598828  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.21667,000,714 - 67,000,920 (+)MAPPERmRatBN7.2
Rnor_6.01671,787,076 - 71,787,281NCBIRnor6.0
Rnor_5.01671,437,369 - 71,437,574UniSTSRnor5.0
RGSC_v3.41671,423,819 - 71,424,024UniSTSRGSC3.4
Celera1664,905,245 - 64,905,450UniSTS
RH 3.4 Map16621.3UniSTS
Cytogenetic Map16q12.4UniSTS


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 2 1
Low 3 31 27 11 19 11 7 9 29 31 35 10 7
Below cutoff 12 30 30 30 1 2 33 4 6 1

Sequence


RefSeq Acc Id: ENSRNOT00000080084   ⟹   ENSRNOP00000070978
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl1667,001,605 - 67,015,074 (+)Ensembl
Rnor_6.0 Ensembl1671,787,966 - 71,802,763 (+)Ensembl
RefSeq Acc Id: NM_001107321   ⟹   NP_001100791
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr81673,704,255 - 73,717,722 (+)NCBI
mRatBN7.21667,001,605 - 67,015,074 (+)NCBI
Rnor_6.01671,787,966 - 71,802,763 (+)NCBI
Rnor_5.01671,438,259 - 71,451,530 (+)NCBI
RGSC_v3.41671,424,709 - 71,438,884 (+)RGD
Celera1664,906,135 - 64,919,639 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_001100791 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein D3ZKF5 (Get FASTA)   NCBI Sequence Viewer  
  EDM09047 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000070978
  ENSRNOP00000070978.2
  ENSRNOP00055011018
  ENSRNOP00060015670
RefSeq Acc Id: NP_001100791   ⟸   NM_001107321
- Peptide Label: precursor
- UniProtKB: D3ZKF5 (UniProtKB/Swiss-Prot),   A0A0G2JZB1 (UniProtKB/TrEMBL)
- Sequence:
RefSeq Acc Id: ENSRNOP00000070978   ⟸   ENSRNOT00000080084
Protein Domains
IGFBP N-terminal   PDZ

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-D3ZKF5-F1-model_v2 AlphaFold D3ZKF5 1-488 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:1306242 AgrOrtholog
BioCyc Gene G2FUF-10953 BioCyc
Ensembl Genes ENSRNOG00000061160 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  ENSRNOG00055008112 UniProtKB/Swiss-Prot
  ENSRNOG00060011796 UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000080084 ENTREZGENE, UniProtKB/TrEMBL
  ENSRNOT00000080084.2 UniProtKB/Swiss-Prot
  ENSRNOT00055013721 UniProtKB/Swiss-Prot
  ENSRNOT00060019953 UniProtKB/Swiss-Prot
Gene3D-CATH 2.30.42.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  2.40.10.120 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.30.60.30 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  4.10.40.20 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
InterPro Growth_fac_rcpt_cys_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  IGFBP-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kazal_dom UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kazal_dom_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peptidase_S1_PA UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Peptidase_S1C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:306564 UniProtKB/Swiss-Prot
NCBI Gene 306564 ENTREZGENE
PANTHER SERINE PROTEASE FAMILY S1C HTRA-RELATED UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SERINE PROTEASE HTRA4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam IGFBP UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Kazal_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ_6 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Trypsin_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Htra4 PhenoGen
PRINTS PROTEASES2C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE IGFBP_N_2 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000061160 RatGTEx
  ENSRNOG00055008112 RatGTEx
  ENSRNOG00060011796 RatGTEx
SMART KAZAL UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PDZ UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SM00121 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF100895 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50156 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF50494 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF57184 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0G2JZB1 ENTREZGENE, UniProtKB/TrEMBL
  D3ZKF5 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2008-04-30 Htra4  HtrA serine peptidase 4   Htra4_predicted  HtrA serine peptidase 4 (predicted)  'predicted' is removed 2292626 APPROVED
2006-03-30 Htra4_predicted  HtrA serine peptidase 4 (predicted)  RGD1306242_predicted  similar to Probable serine protease HTRA4 precursor (predicted)  Symbol and Name updated 1299863 APPROVED
2005-01-20 RGD1306242_predicted  similar to Probable serine protease HTRA4 precursor (predicted)  LOC306564_predicted    Symbol and Name status set to approved 1331353 APPROVED
2005-01-12 LOC306564_predicted  similar to Probable serine protease HTRA4 precursor (predicted)      Symbol and Name status set to provisional 70820 PROVISIONAL