Tgm4 (transglutaminase 4) - Rat Genome Database

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Gene: Tgm4 (transglutaminase 4) Rattus norvegicus
Analyze
Symbol: Tgm4
Name: transglutaminase 4
RGD ID: 620785
Description: Predicted to enable protein-glutamine gamma-glutamyltransferase activity. Predicted to be involved in peptide cross-linking. Predicted to act upstream of or within mating plug formation. Predicted to be located in Golgi apparatus. Predicted to be active in collagen-containing extracellular matrix. Orthologous to human TGM4 (transglutaminase 4); INTERACTS WITH 1-naphthyl isothiocyanate; 2,3,7,8-tetrachlorodibenzodioxine; atrazine.
Type: protein-coding
RefSeq Status: VALIDATED
Previously known as: dorsal prostate transglutaminase; dorsal protein 1; Dp1; glutamine gamma-glutamyltransferase 4; protein-glutamine gamma-glutamyltransferase 4; TGase-4; transglutaminase 4 (prostate); transglutaminase-4
RGD Orthologs
Human
Mouse
Chinchilla
Bonobo
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
GRCr88131,566,887 - 131,603,920 (+)NCBIGRCr8
mRatBN7.28122,689,429 - 122,726,463 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8122,689,429 - 122,726,463 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8128,278,855 - 128,316,606 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08126,477,795 - 126,515,546 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08124,305,997 - 124,343,725 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08132,117,279 - 132,157,485 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8132,120,452 - 132,157,485 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08131,272,260 - 131,311,091 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48127,782,460 - 127,819,491 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18127,802,187 - 127,838,603 (+)NCBI
Celera8121,803,208 - 121,839,825 (+)NCBICelera
Cytogenetic Map8q32NCBI
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. Rat ISS GO annotations from GOA human gene data--August 2006 GOA data from the GO Consortium
3. Molecular cloning of rat prostate transglutaminase complementary DNA. The major androgen-regulated protein DP1 of rat dorsal prostate and coagulating gland. Ho KC, etal., J Biol Chem 1992 Jun 25;267(18):12660-7.
4. Androgen regulated prostate genes: structural analysis and regulation. Ho KC, etal., Prog Clin Biol Res 1987;239:125-53.
5. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
6. GOA pipeline RGD automated data pipeline
7. ClinVar Automated Import and Annotation Pipeline RGD automated import pipeline for ClinVar variants, variant-to-disease annotations and gene-to-disease annotations
8. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
9. Generation and initial analysis of more than 15,000 full-length human and mouse cDNA sequences. Strausberg RL, etal., Proc Natl Acad Sci U S A. 2002 Dec 24;99(26):16899-903. Epub 2002 Dec 11.
Additional References at PubMed
PMID:19056867   PMID:20569004   PMID:20596668   PMID:23341775   PMID:23533145  


Genomics

Comparative Map Data
Tgm4
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr88131,566,887 - 131,603,920 (+)NCBIGRCr8
mRatBN7.28122,689,429 - 122,726,463 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl8122,689,429 - 122,726,463 (+)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx8128,278,855 - 128,316,606 (+)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.08126,477,795 - 126,515,546 (+)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.08124,305,997 - 124,343,725 (+)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.08132,117,279 - 132,157,485 (+)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl8132,120,452 - 132,157,485 (+)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.08131,272,260 - 131,311,091 (+)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
RGSC_v3.48127,782,460 - 127,819,491 (+)NCBIRGSC3.4RGSC_v3.4rn4RGSC3.4
RGSC_v3.18127,802,187 - 127,838,603 (+)NCBI
Celera8121,803,208 - 121,839,825 (+)NCBICelera
Cytogenetic Map8q32NCBI
TGM4
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38344,874,608 - 44,914,990 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl344,874,608 - 44,914,990 (+)EnsemblGRCh38hg38GRCh38
GRCh37344,916,100 - 44,956,482 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36344,891,102 - 44,931,092 (+)NCBINCBI36Build 36hg18NCBI36
Build 34344,891,130 - 44,931,097NCBI
Celera344,854,064 - 44,894,051 (+)NCBICelera
Cytogenetic Map3p21.31NCBI
HuRef344,959,958 - 44,999,946 (+)NCBIHuRef
CHM1_1344,866,110 - 44,906,068 (+)NCBICHM1_1
T2T-CHM13v2.0344,890,333 - 44,930,718 (+)NCBIT2T-CHM13v2.0
Tgm4
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm399122,863,806 - 122,896,623 (+)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl9122,863,791 - 122,896,626 (+)EnsemblGRCm39 Ensembl
GRCm389123,034,741 - 123,067,558 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl9123,034,726 - 123,067,561 (+)EnsemblGRCm38mm10GRCm38
MGSCv379122,943,859 - 122,976,676 (+)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv369122,883,439 - 122,916,256 (+)NCBIMGSCv36mm8
Celera9123,496,347 - 123,518,874 (+)NCBICelera
Cytogenetic Map9F4NCBI
cM Map973.56NCBI
Tgm4
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495542026,737,533 - 26,766,386 (-)EnsemblChiLan1.0
ChiLan1.0NW_00495542026,736,880 - 26,766,386 (-)NCBIChiLan1.0ChiLan1.0
TGM4
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2244,833,048 - 44,873,279 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1344,837,814 - 44,878,045 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0344,775,855 - 44,815,691 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1345,830,764 - 45,870,208 (+)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl345,830,764 - 45,870,208 (+)Ensemblpanpan1.1panPan2
TGM4
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1226,362,600 - 6,391,099 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl226,362,782 - 6,390,223 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_023666041160,778,265 - 160,798,323 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tgm4
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla 1.0NW_00462473075,597,903 - 75,619,589 (-)NCBIHetGla_female_1.0HetGla 1.0hetGla2

Variants

.
Variants in Tgm4
214 total Variants
miRNA Target Status

Predicted Target Of
Summary Value
Count of predictions:213
Count of miRNA genes:157
Interacting mature miRNAs:177
Transcripts:ENSRNOT00000055822
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
738011Anxrr9Anxiety related response QTL 96.1exploratory behavior trait (VT:0010471)number of entries into a discrete space in an experimental apparatus (CMO:0000960)893535351123900184Rat
1358903Bp252Blood pressure QTL 25270.0001arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
738014Anxrr15Anxiety related response QTL 153.60.005locomotor behavior trait (VT:0001392)amount of experiment time spent in a discrete space in an experimental apparatus (CMO:0000958)895718998123900184Rat
2300182Bmd56Bone mineral density QTL 565.4femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)895718998123900184Rat
1554321Bmd3Bone mineral density QTL 37.90.0001femur mineral mass (VT:0010011)volumetric bone mineral density (CMO:0001553)840952565123900184Rat
1358893Bp263Blood pressure QTL 2635.01arterial blood pressure trait (VT:2000000)mean arterial blood pressure (CMO:0000009)893965141123900184Rat
61437Cia6Collagen induced arthritis QTL 6joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)882460758122812818Rat

Markers in Region
BE112987  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28122,732,875 - 122,733,044 (+)MAPPERmRatBN7.2
Rnor_6.08132,163,898 - 132,164,066NCBIRnor6.0
Rnor_5.08131,317,504 - 131,317,672UniSTSRnor5.0
RGSC_v3.48127,825,904 - 127,826,072UniSTSRGSC3.4
Celera8121,845,977 - 121,846,145UniSTS
RH 3.4 Map81276.3UniSTS
Cytogenetic Map8q32UniSTS
BF416391  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.28122,741,028 - 122,741,231 (+)MAPPERmRatBN7.2
Rnor_6.08132,172,050 - 132,172,252NCBIRnor6.0
Rnor_5.08131,325,353 - 131,325,555UniSTSRnor5.0
RGSC_v3.48127,835,249 - 127,835,451UniSTSRGSC3.4
Celera8121,854,133 - 121,854,335UniSTS
RH 3.4 Map81276.29UniSTS
Cytogenetic Map8q32UniSTS


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
nervous system
renal system
reproductive system
respiratory system
9 11 47 101 88 87 56 25 56 6 211 95 81 43 59 31

Sequence


Ensembl Acc Id: ENSRNOT00000055822   ⟹   ENSRNOP00000052677
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8122,689,429 - 122,726,463 (+)Ensembl
Rnor_6.0 Ensembl8132,120,452 - 132,157,485 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000091791   ⟹   ENSRNOP00000075565
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8122,703,824 - 122,726,463 (+)Ensembl
Rnor_6.0 Ensembl8132,135,187 - 132,156,683 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000115588   ⟹   ENSRNOP00000079467
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
mRatBN7.2 Ensembl8122,689,491 - 122,726,463 (+)Ensembl
RefSeq Acc Id: NM_022713   ⟹   NP_073204
RefSeq Status: VALIDATED
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr88131,566,887 - 131,603,920 (+)NCBI
mRatBN7.28122,689,429 - 122,726,463 (+)NCBI
Rnor_6.08132,120,452 - 132,157,485 (+)NCBI
Rnor_5.08131,272,260 - 131,311,091 (+)NCBI
RGSC_v3.48127,782,460 - 127,819,491 (+)RGD
Celera8121,803,208 - 121,839,825 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_073204 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAA41092 (Get FASTA)   NCBI Sequence Viewer  
  AAH66665 (Get FASTA)   NCBI Sequence Viewer  
  AJD87524 (Get FASTA)   NCBI Sequence Viewer  
  EDL76772 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000052677.4
  ENSRNOP00000075565.2
  ENSRNOP00000079467.1
GenBank Protein Q99041 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_073204   ⟸   NM_022713
- UniProtKB: Q6NYB5 (UniProtKB/Swiss-Prot),   Q99041 (UniProtKB/Swiss-Prot),   Z4YP11 (UniProtKB/TrEMBL),   A6I4A2 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000052677   ⟸   ENSRNOT00000055822
Ensembl Acc Id: ENSRNOP00000075565   ⟸   ENSRNOT00000091791
Ensembl Acc Id: ENSRNOP00000079467   ⟸   ENSRNOT00000115588
Protein Domains
Transglutaminase-like

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q99041-F1-model_v2 AlphaFold Q99041 1-667 view protein structure

Transcriptome

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

Promoters
RGD ID:13696404
Promoter ID:EPDNEW_R6928
Type:single initiation site
Name:Tgm4_1
Description:transglutaminase 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_6.08132,120,445 - 132,120,505EPDNEW

Additional Information

Database Acc Id Source(s)
AGR Gene RGD:620785 AgrOrtholog
BioCyc Gene G2FUF-28623 BioCyc
Ensembl Genes ENSRNOG00000004320 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSRNOT00000055822.4 UniProtKB/TrEMBL
  ENSRNOT00000091791.2 UniProtKB/TrEMBL
  ENSRNOT00000115588.1 UniProtKB/TrEMBL
Gene3D-CATH 2.60.40.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  3.90.260.10 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
IMAGE_CLONE IMAGE:5623927 IMAGE-MGC_LOAD
InterPro Ig-like_fold UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Ig_E-set UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Papain-like_cys_pep_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglutaminase UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglutaminase-like UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglutaminase-like_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglutaminase_animal UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglutaminase_AS UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglutaminase_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglutaminase_C_sf UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglutaminase_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
KEGG Report rno:64679 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
MGC_CLONE MGC:72437 IMAGE-MGC_LOAD
NCBI Gene 64679 ENTREZGENE
PANTHER PROTEIN-GLUTAMINE GAMMA-GLUTAMYLTRANSFERASE UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  PROTEIN-GLUTAMINE GAMMA-GLUTAMYLTRANSFERASE 4 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Pfam Transglut_C UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglut_core UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  Transglut_N UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PhenoGen Tgm4 PhenoGen
PIRSF TGM_EBP42 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
PROSITE TRANSGLUTAMINASES UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
RatGTEx ENSRNOG00000004320 RatGTEx
SMART TGc UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
Superfamily-SCOP SSF49309 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF54001 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
  SSF81296 UniProtKB/Swiss-Prot, UniProtKB/TrEMBL
UniProt A0A0B5ABY8_RAT UniProtKB/TrEMBL
  A0A0G2KAX6_RAT UniProtKB/TrEMBL
  A0A8I5ZN59_RAT UniProtKB/TrEMBL
  A6I4A2 ENTREZGENE, UniProtKB/TrEMBL
  Q6NYB5 ENTREZGENE
  Q99041 ENTREZGENE, UniProtKB/Swiss-Prot
  Z4YP11 ENTREZGENE, UniProtKB/TrEMBL
UniProt Secondary Q6NYB5 UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2013-09-17 Tgm4  transglutaminase 4  Tgm4  transglutaminase 4 (prostate)  Nomenclature updated to reflect human and mouse nomenclature 1299863 APPROVED
2005-01-20 Tgm4  transglutaminase 4 (prostate)  Dp1  dorsal protein 1  Symbol and Name updated 1299863 APPROVED
2002-08-07 Dp1  dorsal protein 1      Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_expression expressed only in dorsal prostate and coagulating gland, absent in ventral prostate and other tissues 632615
gene_product member of the transglutaminase gene family 632615
gene_regulation mRNA greatly decreased after castration and increased rapidly following androgen replacement 632615