Human Gene THRA (ENST00000450525.7_4) from GENCODE V47lift37
  Description: thyroid hormone receptor alpha, transcript variant 1 (from RefSeq NM_199334.5)
Gencode Transcript: ENST00000450525.7_4
Gencode Gene: ENSG00000126351.13_7
Transcript (Including UTRs)
   Position: hg19 chr17:38,219,218-38,249,255 Size: 30,038 Total Exon Count: 9 Strand: +
Coding Region
   Position: hg19 chr17:38,230,742-38,245,709 Size: 14,968 Coding Exon Count: 8 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr17:38,219,218-38,249,255)mRNA (may differ from genome)Protein (410 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: Q6FH41_HUMAN
DESCRIPTION: SubName: Full=THRA protein; SubName: Full=Thyroid hormone receptor, alpha (Erythroblastic leukemia viral (V-erb-a) oncogene homolog, avian), isoform CRA_b; SubName: Full=Thyroid normone nuclear receptor alpha variant 1; Flags: Fragment;
SIMILARITY: Belongs to the nuclear hormone receptor family.
SIMILARITY: Contains 1 nuclear receptor DNA-binding domain.

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  MalaCards Disease Associations
  MalaCards Gene Search: THRA
Diseases sorted by gene-association score: hypothyroidism, congenital, nongoitrous, 6* (1300), hypothyroidism, congenital, nongoitrous, 3* (247), thyroid hormone resistance (15), hypothyroidism (11), hyperthyroxinemia (11), bone giant cell tumor (10), thrombasthenia (7), lymph node tuberculosis (5), thyroid gland disease (4)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 71.15 RPKM in Brain - Nucleus accumbens (basal ganglia)
Total median expression: 1039.05 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -218.80425-0.515 Picture PostScript Text
3' UTR -1487.003546-0.419 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR008946 - Nucl_hormone_rcpt_ligand-bd
IPR000536 - Nucl_hrmn_rcpt_lig-bd_core
IPR001723 - Str_hrmn_rcpt
IPR001728 - ThyrH_rcpt
IPR001628 - Znf_hrmn_rcpt
IPR013088 - Znf_NHR/GATA

Pfam Domains:
PF00104 - Ligand-binding domain of nuclear hormone receptor
PF00105 - Zinc finger, C4 type (two domains)

SCOP Domains:
48508 - Nuclear receptor ligand-binding domain
57716 - Glucocorticoid receptor-like (DNA-binding domain)

ModBase Predicted Comparative 3D Structure on Q6FH41
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003677 DNA binding
GO:0003700 transcription factor activity, sequence-specific DNA binding
GO:0003707 steroid hormone receptor activity
GO:0004887 thyroid hormone receptor activity
GO:0008270 zinc ion binding
GO:0043565 sequence-specific DNA binding
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0030522 intracellular receptor signaling pathway
GO:0043401 steroid hormone mediated signaling pathway

Cellular Component:
GO:0005634 nucleus


-  Descriptions from all associated GenBank mRNAs
  LF209322 - JP 2014500723-A/16825: Polycomb-Associated Non-Coding RNAs.
AK311344 - Homo sapiens cDNA, FLJ18386.
AK290530 - Homo sapiens cDNA FLJ75491 complete cds, highly similar to Homo sapiens thyroid hormone receptor, alpha (erythroblastic leukemia viral (v-erb-a) oncogene homolog, avian) (THRA), transcript variant 2, mRNA.
AB209346 - Homo sapiens mRNA for thyroid hormone receptor, alpha isoform 1 variant protein.
BC035137 - Homo sapiens thyroid hormone receptor, alpha (erythroblastic leukemia viral (v-erb-a) oncogene homolog, avian), mRNA (cDNA clone MGC:43240 IMAGE:5264048), complete cds.
X55005 - Homo sapiens mRNA for thyroid hormone receptor alpha 1 THRA1, (c-erbA-1 gene).
LF213776 - JP 2014500723-A/21279: Polycomb-Associated Non-Coding RNAs.
BC000261 - Homo sapiens thyroid hormone receptor, alpha (erythroblastic leukemia viral (v-erb-a) oncogene homolog, avian), mRNA (cDNA clone MGC:2353 IMAGE:3501886), complete cds.
BC002728 - Homo sapiens thyroid hormone receptor, alpha (erythroblastic leukemia viral (v-erb-a) oncogene homolog, avian), mRNA (cDNA clone MGC:3645 IMAGE:3628335), complete cds.
M24899 - Human triiodothyronine (ear7) mRNA, complete cds.
BC006560 - Homo sapiens cDNA clone IMAGE:2961613, **** WARNING: chimeric clone ****.
BC006571 - Homo sapiens cDNA clone IMAGE:2961613, **** WARNING: chimeric clone ****.
BC008851 - Homo sapiens thyroid hormone receptor, alpha (erythroblastic leukemia viral (v-erb-a) oncogene homolog, avian), mRNA (cDNA clone MGC:14305 IMAGE:4137980), complete cds.
Y00479 - H.sapiens mRNA for thyroid hormone receptor.
AK290071 - Homo sapiens cDNA FLJ75155 complete cds, highly similar to Homo sapiens thyroid hormone receptor, alpha (erythroblasticleukemia viral (v-erb-a) oncogene homolog, avian) (THRA),transcript variant 1, mRNA.
JD123596 - Sequence 104620 from Patent EP1572962.
JD036840 - Sequence 17864 from Patent EP1572962.
JD545010 - Sequence 526034 from Patent EP1572962.
JD126543 - Sequence 107567 from Patent EP1572962.
JD076750 - Sequence 57774 from Patent EP1572962.
J03239 - Human c-erbA-alpha-2 gene encoding thyroid hormone receptor type alpha-2 mRNA, complete cds, clone hTR-alpha-2.
JD228881 - Sequence 209905 from Patent EP1572962.
JD272757 - Sequence 253781 from Patent EP1572962.
LF327678 - JP 2014500723-A/135181: Polycomb-Associated Non-Coding RNAs.
DQ892512 - Synthetic construct clone IMAGE:100005142; FLH187033.01X; RZPDo839D0172D thyroid hormone receptor, alpha (erythroblastic leukemia viral (v-erb-a) oncogene homolog, avian) (THRA) gene, encodes complete protein.
DQ895726 - Synthetic construct Homo sapiens clone IMAGE:100010186; FLH187029.01L; RZPDo839D0162D thyroid hormone receptor, alpha (erythroblastic leukemia viral (v-erb-a) oncogene homolog, avian) (THRA) gene, encodes complete protein.
CU674114 - Synthetic construct Homo sapiens gateway clone IMAGE:100018344 5' read THRA mRNA.
CR541915 - Homo sapiens full open reading frame cDNA clone RZPDo834E0733D for gene THRA, thyroid hormone receptor, alpha (erythroblastic leukemia viral (v-erb-a) oncogene homolog, avian); complete cds, without stopcodon.
AB307686 - Homo sapiens NR1A1 mRNA for thyroid hormone receptor alpha, complete cds.
HQ692859 - Homo sapiens thyroid normone nuclear receptor alpha variant 1 (NR1A1) mRNA, complete cds.
AB489181 - Synthetic construct DNA, clone: pF1KB7752, Homo sapiens THRA gene for thyroid hormone receptor, alpha, without stop codon, in Flexi system.
KJ897672 - Synthetic construct Homo sapiens clone ccsbBroadEn_07066 THRA gene, encodes complete protein.
DL491708 - Novel nucleic acids.
DL490289 - Novel nucleic acids.
AF522368 - Homo sapiens thyroid hormone receptor alpha3 mRNA, partial cds.
LF327682 - JP 2014500723-A/135185: Polycomb-Associated Non-Coding RNAs.
LF327683 - JP 2014500723-A/135186: Polycomb-Associated Non-Coding RNAs.
LF327685 - JP 2014500723-A/135188: Polycomb-Associated Non-Coding RNAs.
LF327686 - JP 2014500723-A/135189: Polycomb-Associated Non-Coding RNAs.
BC062421 - Homo sapiens cDNA clone IMAGE:6500508, partial cds.
LF327687 - JP 2014500723-A/135190: Polycomb-Associated Non-Coding RNAs.
LF209323 - JP 2014500723-A/16826: Polycomb-Associated Non-Coding RNAs.
MA563255 - JP 2018138019-A/135181: Polycomb-Associated Non-Coding RNAs.
MA563259 - JP 2018138019-A/135185: Polycomb-Associated Non-Coding RNAs.
MA563260 - JP 2018138019-A/135186: Polycomb-Associated Non-Coding RNAs.
MA563262 - JP 2018138019-A/135188: Polycomb-Associated Non-Coding RNAs.
MA563263 - JP 2018138019-A/135189: Polycomb-Associated Non-Coding RNAs.
MA563264 - JP 2018138019-A/135190: Polycomb-Associated Non-Coding RNAs.
MA444899 - JP 2018138019-A/16825: Polycomb-Associated Non-Coding RNAs.
MA449353 - JP 2018138019-A/21279: Polycomb-Associated Non-Coding RNAs.
MA444900 - JP 2018138019-A/16826: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_egfr_smrtePathway - Map Kinase Inactivation of SMRT Corepressor

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000450525.1, ENST00000450525.2, ENST00000450525.3, ENST00000450525.4, ENST00000450525.5, ENST00000450525.6, hCG_1749555 , NM_199334, NR1A1 , Q6FH41, Q6FH41_HUMAN, THRA , uc320ryc.1, uc320ryc.2
UCSC ID: ENST00000450525.7_4
RefSeq Accession: NM_199334.5
Protein: Q6FH41

-  Gene Model Information
  Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.