TNC (tenascin C) - Rat Genome Database

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Gene: TNC (tenascin C) Chlorocebus sabaeus
Analyze
Symbol: TNC
Name: tenascin C
RGD ID: 18785212
Description: ENCODES a protein that exhibits integrin binding (inferred); syndecan 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
Squirrel
Pig
Naked Mole-Rat
Alliance Genes
More Info more info ...
Latest Assembly: ChlSab1.1 - Green Monkey 1.1 Assembly
Position:
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
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
(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
(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
(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
(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
(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


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

endocrine system hemolymphoid system nervous system
High
Medium 31 48
Low 5 14 12
Below cutoff 5

Sequence

Nucleotide Sequences
RefSeq Transcripts XM_007968264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007968265 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007968266 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007968267 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007968268 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007968269 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007968270 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007968271 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007968273 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_007968274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984211 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984216 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984222 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984234 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984241 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984247 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984250 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984259 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984264 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984274 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
  XM_037984280 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles
GenBank Nucleotide JACDXN010000003 (Get FASTA)   NCBI Sequence Viewer   Search GEO for Microarray Profiles

RefSeq Acc Id: ENSCSAT00000011083   ⟹   ENSCSAP00000009165
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.1 Ensembl1224,457,738 - 24,556,451 (+)Ensembl
RefSeq Acc Id: XM_007968264   ⟹   XP_007966455
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
ChlSab1.11224,457,616 - 24,556,194 (+)NCBI
Vero_WHO_p1.0NW_02366603518,276,825 - 18,375,675 (-)NCBI
Sequence:
RefSeq Acc Id: XM_037984211   ⟹   XP_037840139
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XM_037984216   ⟹   XP_037840144
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,369,913 (-)NCBI
RefSeq Acc Id: XM_037984222   ⟹   XP_037840150
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XM_037984234   ⟹   XP_037840162
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XM_037984241   ⟹   XP_037840169
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XM_037984247   ⟹   XP_037840175
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XM_037984250   ⟹   XP_037840178
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XM_037984259   ⟹   XP_037840187
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XM_037984264   ⟹   XP_037840192
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XM_037984274   ⟹   XP_037840202
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XM_037984280   ⟹   XP_037840208
Type: CODING
Position:
Green Monkey AssemblyChrPosition (strand)Source
Vero_WHO_p1.0NW_02366603518,276,827 - 18,375,675 (-)NCBI
RefSeq Acc Id: XP_007966455   ⟸   XM_007968264
- Peptide Label: isoform X3
- UniProtKB: A0A0D9RKM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: ENSCSAP00000009165   ⟸   ENSCSAT00000011083
RefSeq Acc Id: XP_037840202   ⟸   XM_037984274
- Peptide Label: isoform X10
RefSeq Acc Id: XP_037840187   ⟸   XM_037984259
- Peptide Label: isoform X8
- UniProtKB: A0A0D9RKM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037840192   ⟸   XM_037984264
- Peptide Label: isoform X9
RefSeq Acc Id: XP_037840208   ⟸   XM_037984280
- Peptide Label: isoform X11
RefSeq Acc Id: XP_037840175   ⟸   XM_037984247
- Peptide Label: isoform X6
- UniProtKB: A0A0D9RKM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037840169   ⟸   XM_037984241
- Peptide Label: isoform X5
- UniProtKB: A0A0D9RKM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037840150   ⟸   XM_037984222
- Peptide Label: isoform X2
- UniProtKB: A0A0D9RKM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037840178   ⟸   XM_037984250
- Peptide Label: isoform X7
- UniProtKB: A0A0D9RKM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037840162   ⟸   XM_037984234
- Peptide Label: isoform X4
- UniProtKB: A0A0D9RKM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037840139   ⟸   XM_037984211
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RKM6 (UniProtKB/TrEMBL)
RefSeq Acc Id: XP_037840144   ⟸   XM_037984216
- Peptide Label: isoform X1
- UniProtKB: A0A0D9RKM6 (UniProtKB/TrEMBL)


Additional Information

Database Acc Id Source(s)
Ensembl Genes ENSCSAG00000012989 Ensembl, ENTREZGENE, UniProtKB/TrEMBL
Ensembl Transcript ENSCSAT00000011083.1 UniProtKB/TrEMBL
Gene3D-CATH 2.20.25.10 UniProtKB/TrEMBL
  2.60.40.10 UniProtKB/TrEMBL
  3.90.215.10 UniProtKB/TrEMBL
  Laminin UniProtKB/TrEMBL
InterPro 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
KEGG Report csab:103218953 UniProtKB/TrEMBL
NCBI Gene TNC ENTREZGENE
PANTHER PTHR46708:SF1 UniProtKB/TrEMBL
  TENASCIN UniProtKB/TrEMBL
Pfam EGF_2 UniProtKB/TrEMBL
  EGF_Tenascin UniProtKB/TrEMBL
  Fibrinogen_C UniProtKB/TrEMBL
  fn3 UniProtKB/TrEMBL
PROSITE EGF_1 UniProtKB/TrEMBL
  EGF_2 UniProtKB/TrEMBL
  EGF_3 UniProtKB/TrEMBL
  FIBRINOGEN_C_2 UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
SMART EGF UniProtKB/TrEMBL
  FBG UniProtKB/TrEMBL
  FN3 UniProtKB/TrEMBL
Superfamily-SCOP SSF49265 UniProtKB/TrEMBL
  SSF56496 UniProtKB/TrEMBL
UniProt A0A0D9RKM6 ENTREZGENE, UniProtKB/TrEMBL