Tnc (tenascin C) - Rat Genome Database

Send us a Message
Submit Data |  Help |  Video Tutorials |  News |  Publications |  Download |  REST API |  Citing RGD |  Contact   
Search RGD Grant Resources Citing RGD About Us Contact Us
Genes Variants Community Projects QTLs Strains Markers Genome Information Ontologies Cell Lines References Download Submit Data
OntoMate (Literature Search) JBrowse (Genome Browser) Synteny Browser (VCMap) Variant Visualizer Multi-Ontology Enrichment (MOET) Gene-Ortholog Location Finder (GOLF) InterViewer (Protein-Protein Interactions) PhenoMiner (Quatitative Phenotypes) Gene Annotator OLGA (Gene List Generator) AllianceMine GViewer (Genome Viewer)
Aging & Age-Related Disease Cancer & Neoplastic Disease Cardiovascular Disease Coronavirus Disease Developmental Disease Diabetes Hematologic Disease Immune & Inflammatory Disease Infectious Disease Liver Disease Neurological Disease Obesity & Metabolic Syndrome Renal Disease Respiratory Disease Sensory Organ Disease
Find Models   new Genetic Models Autism Models Rat PhenoMiner (Quantitative Phenotypes) Chinchilla PhenoMiner Expected Ranges (Quantitative Phenotype) PhenoMiner Term Comparison Hybrid Rat Diversity Panel Phenotypes Phenotypes in Other Animal Models Animal Husbandry Strain Medical Records Phylogenetics Strain Availability Calendar Rats 101 Submissions Photo Archive
Pathways
Rat Community Forum Directory of Rat Laboratories Video Tutorials News RGD Publications RGD Presentations Archive Nomenclature Guidelines Resource Links Laboratory Resources Employment Resources
Gene: Tnc (tenascin C) Ictidomys tridecemlineatus
Analyze
Symbol: Tnc
Name: tenascin C
RGD ID: 12696183
Description: ENCODES a protein that exhibits calcium ion binding (inferred); integrin binding (inferred); metal ion binding (inferred); INVOLVED IN bud outgrowth involved in lung branching (ortholog); cellular response to prostaglandin D stimulus (ortholog); cellular response to retinoic acid (ortholog); PARTICIPATES IN syndecan signaling pathway; ASSOCIATED WITH allergic conjunctivitis (ortholog); asbestosis (ortholog); asthma (ortholog); FOUND IN perisynaptic extracellular matrix (ortholog)
Type: protein-coding
RefSeq Status: MODEL
Previously known as: tenascin
RGD Orthologs
Human
Mouse
Rat
Chinchilla
Bonobo
Dog
Pig
Green Monkey
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: SpeTri2.0 - Squirrel SpeTri2.0 Assembly
Position:
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947184,403,727 - 184,487,858 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364874,172,886 - 4,233,126 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364874,172,263 - 4,256,780 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
JBrowse: View Region in Genome Browser (JBrowse)
Model


Gene Ontology Annotations     Click to see Annotation Detail View

Cellular Component

Molecular Function

Molecular Pathway Annotations     Click to see Annotation Detail View
References
Additional References at PubMed
PMID:22301074  


Genomics

Comparative Map Data
Tnc
(Ictidomys tridecemlineatus - thirteen-lined ground squirrel)
Squirrel AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HiC_Itri_2NW_024404947184,403,727 - 184,487,858 (-)NCBIHiC_Itri_2
SpeTri2.0 EnsemblNW_0049364874,172,886 - 4,233,126 (-)EnsemblSpeTri2.0SpeTri2.0 Ensembl
SpeTri2.0NW_0049364874,172,263 - 4,256,780 (-)NCBISpeTri2.0SpeTri2.0SpeTri2.0
TNC
(Homo sapiens - human)
Human AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCh389115,019,575 - 115,118,157 (-)NCBIGRCh38GRCh38hg38GRCh38
GRCh38.p14 Ensembl9115,019,575 - 115,118,207 (-)EnsemblGRCh38hg38GRCh38
GRCh379117,781,854 - 117,880,436 (-)NCBIGRCh37GRCh37hg19GRCh37
Build 369116,822,626 - 116,920,307 (-)NCBINCBI36Build 36hg18NCBI36
Build 349114,862,366 - 114,959,993NCBI
Celera988,430,273 - 88,527,747 (-)NCBICelera
Cytogenetic Map9q33.1NCBI
HuRef987,386,539 - 87,484,951 (-)NCBIHuRef
CHM1_19117,928,574 - 118,027,020 (-)NCBICHM1_1
T2T-CHM13v2.09127,212,162 - 127,310,465 (-)NCBIT2T-CHM13v2.0
Tnc
(Mus musculus - house mouse)
Mouse AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCm39463,878,022 - 63,965,554 (-)NCBIGRCm39GRCm39mm39
GRCm39 Ensembl463,878,022 - 63,965,252 (-)EnsemblGRCm39 Ensembl
GRCm38463,959,785 - 64,047,015 (-)NCBIGRCm38GRCm38mm10GRCm38
GRCm38.p6 Ensembl463,959,785 - 64,047,015 (-)EnsemblGRCm38mm10GRCm38
MGSCv37463,620,819 - 63,681,760 (-)NCBIGRCm37MGSCv37mm9NCBIm37
MGSCv36463,446,149 - 63,507,087 (-)NCBIMGSCv36mm8
Celera462,620,454 - 62,681,423 (-)NCBICelera
Cytogenetic Map4C1NCBI
cM Map434.06NCBI
Tnc
(Rattus norvegicus - Norway rat)
Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
GRCr8582,391,340 - 82,476,197 (-)NCBIGRCr8
mRatBN7.2577,375,851 - 77,460,712 (-)NCBImRatBN7.2mRatBN7.2
mRatBN7.2 Ensembl577,375,851 - 77,460,624 (-)EnsemblmRatBN7.2 Ensembl
UTH_Rnor_SHR_Utx579,772,326 - 79,857,198 (-)NCBIRnor_SHRUTH_Rnor_SHR_Utx
UTH_Rnor_SHRSP_BbbUtx_1.0581,589,535 - 81,674,415 (-)NCBIRnor_SHRSPUTH_Rnor_SHRSP_BbbUtx_1.0
UTH_Rnor_WKY_Bbb_1.0581,565,002 - 81,649,884 (-)NCBIRnor_WKYUTH_Rnor_WKY_Bbb_1.0
Rnor_6.0579,789,686 - 79,874,555 (-)NCBIRnor6.0Rnor_6.0rn6Rnor6.0
Rnor_6.0 Ensembl579,789,671 - 79,874,671 (-)EnsemblRnor6.0rn6Rnor6.0
Rnor_5.0583,890,952 - 83,950,462 (-)NCBIRnor5.0Rnor_5.0rn5Rnor5.0
Celera576,306,295 - 76,365,869 (-)NCBICelera
Cytogenetic Map5q24NCBI
Tnc
(Chinchilla lanigera - long-tailed chinchilla)
Chinchilla AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChiLan1.0 EnsemblNW_00495541912,569,547 - 12,662,958 (+)EnsemblChiLan1.0
ChiLan1.0NW_00495541912,569,620 - 12,662,897 (+)NCBIChiLan1.0ChiLan1.0
TNC
(Pan paniscus - bonobo/pygmy chimpanzee)
Bonobo AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
NHGRI_mPanPan1-v21124,252,394 - 24,349,633 (+)NCBINHGRI_mPanPan1-v2
NHGRI_mPanPan1924,254,811 - 24,351,994 (+)NCBINHGRI_mPanPan1
Mhudiblu_PPA_v0986,125,672 - 86,222,804 (-)NCBIMhudiblu_PPA_v0Mhudiblu_PPA_v0panPan3
PanPan1.19114,486,778 - 114,584,297 (-)NCBIpanpan1.1PanPan1.1panPan2
PanPan1.1 Ensembl9114,486,778 - 114,584,299 (-)Ensemblpanpan1.1panPan2
TNC
(Canis lupus familiaris - dog)
Dog AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
CanFam3.11169,077,532 - 69,169,673 (-)NCBICanFam3.1CanFam3.1canFam3CanFam3.1
CanFam3.1 Ensembl1169,077,535 - 69,170,281 (-)EnsemblCanFam3.1canFam3CanFam3.1
Dog10K_Boxer_Tasha1167,478,996 - 67,543,867 (-)NCBIDog10K_Boxer_Tasha
ROS_Cfam_1.01170,201,293 - 70,293,471 (-)NCBIROS_Cfam_1.0
ROS_Cfam_1.0 Ensembl1170,201,298 - 70,293,416 (-)EnsemblROS_Cfam_1.0 Ensembl
UMICH_Zoey_3.11168,715,128 - 68,780,124 (-)NCBIUMICH_Zoey_3.1
UNSW_CanFamBas_1.01168,756,416 - 68,820,385 (-)NCBIUNSW_CanFamBas_1.0
UU_Cfam_GSD_1.01169,487,404 - 69,552,684 (-)NCBIUU_Cfam_GSD_1.0
TNC
(Sus scrofa - pig)
Pig AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
Sscrofa11.1 Ensembl1255,533,238 - 255,630,376 (-)EnsemblSscrofa11.1susScr11Sscrofa11.1
Sscrofa11.11255,533,235 - 255,630,381 (-)NCBISscrofa11.1Sscrofa11.1susScr11Sscrofa11.1
Sscrofa10.21286,732,751 - 286,813,962 (-)NCBISscrofa10.2Sscrofa10.2susScr3
Pig Cytomap1q21.1-q21.3NCBI
TNC
(Chlorocebus sabaeus - green monkey)
Green Monkey AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
ChlSab1.11224,457,616 - 24,556,194 (+)NCBIChlSab1.1ChlSab1.1chlSab2
ChlSab1.1 Ensembl1224,457,738 - 24,556,451 (+)EnsemblChlSab1.1ChlSab1.1 EnsemblchlSab2
Vero_WHO_p1.0NW_02366603518,276,825 - 18,375,675 (-)NCBIVero_WHO_p1.0Vero_WHO_p1.0
Tnc
(Heterocephalus glaber - naked mole-rat)
Naked Mole-Rat AssemblyChrPosition (strand)SourceGenome Browsers
JBrowseNCBIUCSCEnsembl
HetGla_female_1.0 EnsemblNW_00462476020,044,826 - 20,137,616 (+)EnsemblHetGla_female_1.0HetGla_female_1.0 EnsemblhetGla2
HetGla 1.0NW_00462476020,044,900 - 20,137,260 (+)NCBIHetGla_female_1.0HetGla 1.0hetGla2


Expression


Sequence


Reference Sequences
RefSeq Acc Id: ENSSTOT00000003406   ⟹   ENSSTOP00000003047
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049364874,172,886 - 4,233,126 (-)Ensembl
RefSeq Acc Id: ENSSTOT00000026028   ⟹   ENSSTOP00000018589
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
SpeTri2.0 EnsemblNW_0049364874,172,886 - 4,233,126 (-)Ensembl
RefSeq Acc Id: XM_040283824   ⟹   XP_040139758
Type: CODING
Position:
Squirrel AssemblyChrPosition (strand)Source
HiC_Itri_2NW_024404947184,403,727 - 184,487,858 (-)NCBI
Protein Sequences
Protein RefSeqs XP_040139758 (Get FASTA)   NCBI Sequence Viewer  
Ensembl Protein ENSSTOP00000003047.3
  ENSSTOP00000018589.2
GenBank Protein KAG3287793 (Get FASTA)   NCBI Sequence Viewer  
Reference Protein Sequences
RefSeq Acc Id: XP_040139758   ⟸   XM_040283824
- UniProtKB: I3N2J3 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSSTOP00000018589   ⟸   ENSSTOT00000026028
RefSeq Acc Id: ENSSTOP00000003047   ⟸   ENSSTOT00000003406
Protein Domains
EF-hand   EGF-like   Fibrinogen C-terminal   Fibronectin type-III


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSSTOG00000003382 Ensembl, UniProtKB/TrEMBL
Ensembl Transcript ENSSTOT00000003406.3 UniProtKB/TrEMBL
  ENSSTOT00000026028.2 UniProtKB/TrEMBL
Gene3D-CATH 2.20.25.10 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
  3.90.215.10 UniProtKB/TrEMBL
  EF-hand UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro EF-hand-dom_pair UniProtKB/TrEMBL
  EF_Hand_1_Ca_BS UniProtKB/TrEMBL
  EF_hand_dom UniProtKB/TrEMBL
  EGF-like_dom UniProtKB/TrEMBL
  EGF_extracell UniProtKB/TrEMBL
  EGF_Tenascin UniProtKB/TrEMBL
  Fibrinogen-like_C UniProtKB/TrEMBL
  Fibrinogen_a/b/g_C_1 UniProtKB/TrEMBL
  Fibrinogen_a/b/g_C_dom UniProtKB/TrEMBL
  FN3_dom UniProtKB/TrEMBL
  FN3_sf UniProtKB/TrEMBL
  Ig-like_fold UniProtKB/TrEMBL
NCBI Gene Tnc ENTREZGENE
PANTHER MYOSIN LIGHT CHAIN 1, 3 UniProtKB/TrEMBL
  PTHR46708:SF1 UniProtKB/TrEMBL
  TENASCIN UniProtKB/TrEMBL
  TROPONIN C1, SLOW SKELETAL AND CARDIAC TYPE UniProtKB/TrEMBL
Pfam EF-hand_7 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_Tenascin UniProtKB/TrEMBL
  Fibrinogen_C UniProtKB/TrEMBL
  fn3 UniProtKB/TrEMBL
PROSITE EF_HAND_1 UniProtKB/TrEMBL
  EF_HAND_2 UniProtKB/TrEMBL
  EGF_1 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  FIBRINOGEN_C_2 UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
SMART EFh UniProtKB/TrEMBL
  EGF UniProtKB/TrEMBL
  FBG UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
Superfamily-SCOP SSF47473 UniProtKB/TrEMBL
  SSF49265 UniProtKB/TrEMBL
  SSF56496 UniProtKB/TrEMBL
UniProt I3M282_ICTTR UniProtKB/TrEMBL
  I3N2J3 ENTREZGENE, UniProtKB/TrEMBL
  L7X816_ICTTR UniProtKB/TrEMBL