Tnmd (tenomodulin) - Rat Genome Database

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Gene: Tnmd (tenomodulin) Rattus norvegicus
Analyze
Symbol: Tnmd
Name: tenomodulin
RGD ID: 620938
Description: Involved in cellular response to BMP stimulus and tendon cell differentiation. Predicted to be located in cell surface. Orthologous to human TNMD (tenomodulin); INTERACTS WITH 1-[(4-chlorophenyl)-phenylmethyl]-4-methylpiperazine; 2,3,7,8-Tetrachlorodibenzofuran; ammonium chloride.
Type: protein-coding
RefSeq Status: PROVISIONAL
Previously known as: ChM1L; chondromodulin-1-like protein; chondromodulin-I-like protein; myodulin; rChM1L; rTeM; teM
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
GRCr8X101,350,432 - 101,365,929 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX101,350,269 - 101,365,929 (+)EnsemblGRCr8
mRatBN7.2X97,057,137 - 97,072,634 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX97,057,137 - 97,072,634 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX98,731,282 - 98,746,779 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X102,241,064 - 102,256,561 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X99,744,458 - 99,759,955 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X104,684,676 - 104,700,173 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX104,684,676 - 104,700,173 (+)Ensemblrn6Rnor6.0
Rnor_5.0X104,520,020 - 104,535,506 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X121,396,741 - 121,412,196 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX98,105,001 - 98,120,498 (+)NCBICelera
RGSC_v3.1X121,470,173 - 121,485,630 (+)NCBI
Cytogenetic MapXq32NCBI
JBrowse:




Gene Ontology Annotations     Click to see Annotation Detail View

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. BMP-12 treatment of adult mesenchymal stem cells in vitro augments tendon-like tissue formation and defect repair in vivo. Lee JY, etal., PLoS One. 2011 Mar 11;6(3):e17531. doi: 10.1371/journal.pone.0017531.
3. Rat ISS GO annotations from MGI mouse gene data--August 2006 MGD data from the GO Consortium
4. Electronic Transfer of LocusLink and RefSeq Data NCBI rat LocusLink and RefSeq merged data July 26, 2002
5. GOA pipeline RGD automated data pipeline
6. Data Import for Chemical-Gene Interactions RGD automated import pipeline for gene-chemical interactions
7. Molecular cloning and characterization of CHM1L, a novel membrane molecule similar to chondromodulin-I. Yamana K, etal., Biochem Biophys Res Commun 2001 Feb 2;280(4):1101-6.
Additional References at PubMed
PMID:12714610   PMID:14720505   PMID:18337200   PMID:28750046   PMID:30307981   PMID:34066472   PMID:36513131  


Genomics

Comparative Map Data
Tnmd
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8X101,350,432 - 101,365,929 (+)NCBIGRCr8GRCr8GRCr8
GRCr8 EnsemblX101,350,269 - 101,365,929 (+)EnsemblGRCr8
mRatBN7.2X97,057,137 - 97,072,634 (+)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 EnsemblX97,057,137 - 97,072,634 (+)EnsemblmRatBN7.2
UTH_Rnor_SHR_UtxX98,731,282 - 98,746,779 (+)NCBIUTH_Rnor_SHR_UtxUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0X102,241,064 - 102,256,561 (+)NCBIUTH_Rnor_SHRSP_BbbUtx_1.0UTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0X99,744,458 - 99,759,955 (+)NCBIUTH_Rnor_WKY_Bbb_1.0UTH_Rnor_WKY_Bbb_1.0
Rnor_6.0X104,684,676 - 104,700,173 (+)NCBIRnor_6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 EnsemblX104,684,676 - 104,700,173 (+)Ensemblrn6Rnor6.0
Rnor_5.0X104,520,020 - 104,535,506 (+)NCBIRnor_5.0Rnor_5.0rn5
RGSC_v3.4X121,396,741 - 121,412,196 (+)NCBIRGSC_v3.4RGSC_v3.4rn4
CeleraX98,105,001 - 98,120,498 (+)NCBICelera
RGSC_v3.1X121,470,173 - 121,485,630 (+)NCBI
Cytogenetic MapXq32NCBI
TNMD
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh38X100,584,936 - 100,599,885 (+)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 EnsemblX100,584,936 - 100,599,885 (+)Ensemblhg38GRCh38
GRCh37X99,839,933 - 99,854,882 (+)NCBIGRCh37GRCh37hg19GRCh37
Build 36X99,726,446 - 99,741,538 (+)NCBIBuild 36Build 36hg18NCBI36
Build 34X99,645,974 - 99,661,022NCBI
CeleraX100,358,526 - 100,373,618 (+)NCBICelera
Cytogenetic MapXq22.1NCBI
HuRefX89,639,690 - 89,654,782 (+)NCBIHuRef
CHM1_1X99,732,699 - 99,747,791 (+)NCBICHM1_1
T2T-CHM13v2.0X99,027,366 - 99,042,315 (+)NCBIT2T-CHM13v2.0
Tnmd
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39X132,751,757 - 132,766,326 (+)NCBIGRCm39GRCm39mm39
GRCm39 EnsemblX132,751,729 - 132,766,326 (+)EnsemblGRCm39 EnsemblGRCm39
GRCm38X133,851,008 - 133,865,577 (+)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 EnsemblX133,850,980 - 133,865,577 (+)Ensemblmm10GRCm38
MGSCv37X130,385,547 - 130,400,116 (+)NCBIMGSCv37MGSCv37mm9NCBIm37
MGSCv36X129,197,358 - 129,211,927 (+)NCBIMGSCv36mm8
CeleraX116,728,599 - 116,743,105 (+)NCBICelera
Cytogenetic MapXE3NCBI
cM MapX55.47NCBI
Tnmd
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_0049555036,732,733 - 6,750,717 (+)Ensembl
ChiLan1.0NW_0049555036,732,791 - 6,750,693 (+)NCBIChiLan1.0ChiLan1.0
TNMD
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v2X100,192,706 - 100,208,094 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1X100,205,018 - 100,211,699 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0X89,795,752 - 89,810,791 (+)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.1X99,935,207 - 99,950,283 (+)NCBIPanPan1.1PanPan1.1panPan2
PanPan1.1 EnsemblX99,935,207 - 99,950,283 (+)EnsemblpanPan2panpan1.1
TNMD
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.1X74,459,111 - 74,475,010 (+)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 EnsemblX74,459,313 - 74,478,170 (+)EnsemblcanFam3CanFam3.1
ROS_Cfam_1.0X75,868,805 - 75,884,657 (+)NCBIROS_Cfam_1.0ROS_Cfam_1.0
ROS_Cfam_1.0 EnsemblX75,868,965 - 75,884,664 (+)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.1X73,431,133 - 73,446,983 (+)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.0X75,101,495 - 75,117,351 (+)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.0X74,862,398 - 74,878,257 (+)NCBIUU_Cfam_GSD_1.0UU_Cfam_GSD_1.0
Tnmd
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2X63,734,330 - 63,749,631 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049365845,803,309 - 5,818,647 (+)EnsemblSpeTri2.0 Ensembl
SpeTri2.0NW_0049365845,803,309 - 5,818,643 (+)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNMD
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 EnsemblX82,269,239 - 82,292,246 (+)EnsemblsusScr11Sscrofa11.1
Sscrofa11.1X82,269,323 - 82,292,083 (+)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.2X90,109,157 - 90,132,534 (+)NCBISscrofa10.2Sscrofa10.2susScr3
TNMD
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.1X88,895,412 - 88,911,679 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 EnsemblX88,896,106 - 88,911,699 (+)EnsemblChlSab1.1 EnsemblchlSab2Vervet-AGM
Vero_WHO_p1.0NW_02366606513,825,083 - 13,840,866 (+)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnmd
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_0046249022,019,185 - 2,038,311 (-)EnsemblHetGla_female_1.0 EnsemblhetGla2HetGla_female_1.0 Ensembl
HetGla 1.0NW_0046249022,019,649 - 2,038,203 (-)NCBIHetGla 1.0HetGla 1.0hetGla2
Tnmd
(Rattus rattus - black rat)
Black Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Rrattus_CSIRO_v1X86,180,136 - 86,195,443 (+)NCBIRrattus_CSIRO_v1

Variants

.
Variants in Tnmd
51 total Variants
miRNA Target Status (No longer updated)

Predicted Target Of
Summary Value
Count of predictions:141
Count of miRNA genes:111
Interacting mature miRNAs:118
Transcripts:ENSRNOT00000005214
Prediction methods:Microtar, Miranda, Pita, 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
1598872Memor14Memory QTL 144.5exploratory behavior trait (VT:0010471)difference between duration of physical contact or close proximity of test subject and social stimulus during sample phase and test phase (CMO:0002678)X97528096142528096Rat
61430Cia18Collagen induced arthritis QTL 183.1joint integrity trait (VT:0010548)joint inflammation composite score (CMO:0000919)X80434318125434318Rat
738029Stresp2Stress response QTL 23.40.0004stress-related behavior trait (VT:0010451)defensive burying - approachX92979612117740458Rat
738035Stresp1Stress response QTL 14.960.000011stress-related behavior trait (VT:0010451)defensive burying - copingX45182909117740458Rat
2302047Pia34Pristane induced arthritis QTL 345.80.001blood immunoglobulin amount (VT:0002460)serum immunoglobulin G1 level (CMO:0002115)1996916163141916163Rat

Markers in Region
RH132574  
Rat AssemblyChrPosition (strand)SourceJBrowse
mRatBN7.2X97,072,385 - 97,072,572 (+)MAPPERmRatBN7.2
Rnor_6.0X104,699,925 - 104,700,111NCBIRnor6.0
Rnor_5.0X104,535,269 - 104,535,455UniSTSRnor5.0
RGSC_v3.4X121,411,990 - 121,412,176UniSTSRGSC3.4
CeleraX98,120,250 - 98,120,436UniSTS
Cytogenetic MapXq34UniSTS


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
10 12 41 107 39 38 7 25 7 6 190 98 11 81 67 58 31 1 1

Sequence


Ensembl Acc Id: ENSRNOT00000083229   ⟹   ENSRNOP00000073972
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX101,350,269 - 101,365,923 (+)Ensembl
mRatBN7.2 EnsemblX97,057,137 - 97,072,634 (+)Ensembl
Rnor_6.0 EnsemblX104,684,676 - 104,700,173 (+)Ensembl
Ensembl Acc Id: ENSRNOT00000106427   ⟹   ENSRNOP00000076479
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8 EnsemblX101,350,649 - 101,365,929 (+)Ensembl
mRatBN7.2 EnsemblX97,057,354 - 97,072,634 (+)Ensembl
RefSeq Acc Id: NM_022290   ⟹   NP_071626
RefSeq Status: PROVISIONAL
Type: CODING
Position:
Rat AssemblyChrPosition (strand)Source
GRCr8X101,350,432 - 101,365,929 (+)NCBI
mRatBN7.2X97,057,137 - 97,072,634 (+)NCBI
Rnor_6.0X104,684,676 - 104,700,173 (+)NCBI
Rnor_5.0X104,520,020 - 104,535,506 (+)NCBI
RGSC_v3.4X121,396,741 - 121,412,196 (+)RGD
CeleraX98,105,001 - 98,120,498 (+)RGD
Sequence:
Protein Sequences
Protein RefSeqs NP_071626 (Get FASTA)   NCBI Sequence Viewer  
GenBank Protein AAG28394 (Get FASTA)   NCBI Sequence Viewer  
  BAB21758 (Get FASTA)   NCBI Sequence Viewer  
  EDM07043 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSRNOP00000073972
  ENSRNOP00000073972.1
GenBank Protein Q9ESC2 (Get FASTA)   NCBI Sequence Viewer  
RefSeq Acc Id: NP_071626   ⟸   NM_022290
- UniProtKB: Q9ESC2 (UniProtKB/Swiss-Prot),   A6IVD7 (UniProtKB/TrEMBL),   A0A8I5Y566 (UniProtKB/TrEMBL)
- Sequence:
Ensembl Acc Id: ENSRNOP00000073972   ⟸   ENSRNOT00000083229
Ensembl Acc Id: ENSRNOP00000076479   ⟸   ENSRNOT00000106427
Protein Domains
BRICHOS

Protein Structures
Name Modeler Protein Id AA Range Protein Structure
AF-Q9ESC2-F1-model_v2 AlphaFold Q9ESC2 1-317 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:620938 AgrOrtholog
BioCyc Gene G2FUF-1700 BioCyc
Ensembl Genes ENSRNOG00000060970 Ensembl, ENTREZGENE, UniProtKB/Swiss-Prot
Ensembl Transcript ENSRNOT00000083229 ENTREZGENE
  ENSRNOT00000083229.2 UniProtKB/Swiss-Prot
InterPro BRICHOS_dom UniProtKB/Swiss-Prot
  Chondromodulin/Tenomodulin UniProtKB/Swiss-Prot
KEGG Report rno:64104 UniProtKB/Swiss-Prot
NCBI Gene 64104 ENTREZGENE
PANTHER PTHR14064 UniProtKB/Swiss-Prot
  TENOMODULIN UniProtKB/Swiss-Prot
Pfam BRICHOS UniProtKB/Swiss-Prot
PhenoGen Tnmd PhenoGen
PROSITE BRICHOS UniProtKB/Swiss-Prot
RatGTEx ENSRNOG00000060970 RatGTEx
SMART BRICHOS UniProtKB/Swiss-Prot
UniProt A0A8I5Y566 ENTREZGENE, UniProtKB/TrEMBL
  A6IVD7 ENTREZGENE, UniProtKB/TrEMBL
  Q9ESC2 ENTREZGENE, UniProtKB/Swiss-Prot


Nomenclature History
Date Current Symbol Current Name Previous Symbol Previous Name Description Reference Status
2004-09-10 Tnmd  tenomodulin      Symbol and Name status set to approved 1299863 APPROVED
2002-08-07 Tnmd        Symbol and Name status set to provisional 70820 PROVISIONAL

RGD Curation Notes
Note Type Note Reference
gene_cellular_localization localized to cell surface 727311
gene_expression mRNA is highly expressed in eye, skeletal muscle, and whole rib 727311
gene_protein predicted protein contains 317 aa residues, with a non-glycosylated mass of 40 kDa 727311