Human Gene TECR (ENST00000215567.10_4) from GENCODE V47lift37
  Description: trans-2,3-enoyl-CoA reductase, transcript variant 1 (from RefSeq NM_138501.6)
Gencode Transcript: ENST00000215567.10_4
Gencode Gene: ENSG00000099797.15_9
Transcript (Including UTRs)
   Position: hg19 chr19:14,640,406-14,676,792 Size: 36,387 Total Exon Count: 13 Strand: +
Coding Region
   Position: hg19 chr19:14,640,509-14,676,683 Size: 36,175 Coding Exon Count: 13 

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 (chr19:14,640,406-14,676,792)mRNA (may differ from genome)Protein (308 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: TECR_HUMAN
DESCRIPTION: RecName: Full=Very-long-chain enoyl-CoA reductase; EC=1.3.1.93; AltName: Full=Synaptic glycoprotein SC2; AltName: Full=Trans-2,3-enoyl-CoA reductase; Short=TER;
FUNCTION: Reduces trans-2,3-stearoyl-CoA to stearoyl-CoA of long and very long chain fatty acids.
CATALYTIC ACTIVITY: A very-long-chain acyl-CoA + NADP(+) = a very- long-chain trans-2,3-dehydroacyl-CoA + NADPH.
SUBUNIT: Interacts with ELOVL1 and LASS2.
SUBCELLULAR LOCATION: Endoplasmic reticulum membrane; Multi-pass membrane protein.
TISSUE SPECIFICITY: Expressed in most tissues tested. Highly expressed in skeletal muscle.
DISEASE: Defects in TECR are the cause of mental retardation autosomal recessive type 14 (MRT14) [MIM:614020]. Mental retardation is characterized by significantly below average general intellectual functioning associated with impairments in adaptative behavior and manifested during the developmental period.
SIMILARITY: Belongs to the steroid 5-alpha reductase family.

-  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: TECR
Diseases sorted by gene-association score: mental retardation, autosomal recessive 14* (1329), autosomal recessive non-syndromic intellectual disability* (129), seborrheic infantile dermatitis (17), tinea pedis (11), oral cavity cancer (4)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 105.39 RPKM in Esophagus - Mucosa
Total median expression: 1949.61 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 -43.20103-0.419 Picture PostScript Text
3' UTR -38.10109-0.350 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
IPR001104 - 3-oxo-5_a-steroid_4-DH_C

Pfam Domains:
PF02544 - 3-oxo-5-alpha-steroid 4-dehydrogenase

SCOP Domains:
54236 - Ubiquitin-like
55120 - Pseudouridine synthase

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2DZJ - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q9NZ01
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 orthologGenome BrowserNo ortholog
Gene DetailsGene Details  Gene Details 
Gene SorterGene Sorter  Gene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0016491 oxidoreductase activity
GO:0016627 oxidoreductase activity, acting on the CH-CH group of donors
GO:0017099 very-long-chain-acyl-CoA dehydrogenase activity

Biological Process:
GO:0006629 lipid metabolic process
GO:0006631 fatty acid metabolic process
GO:0006633 fatty acid biosynthetic process
GO:0030497 fatty acid elongation
GO:0035338 long-chain fatty-acyl-CoA biosynthetic process
GO:0042761 very long-chain fatty acid biosynthetic process
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005783 endoplasmic reticulum
GO:0005789 endoplasmic reticulum membrane
GO:0016020 membrane
GO:0016021 integral component of membrane
GO:0030176 integral component of endoplasmic reticulum membrane


-  Descriptions from all associated GenBank mRNAs
  HZ043268 - JP 2015510401-A/358: MESENCHYMAL STEM CELLS FOR IN VITRO MODELING AND CELL-BASED THERAPY OF HUMAN DISEASES AND BANKS THEREOF.
HZ081894 - JP 2015514392-A/358: MicroRNAS FOR THE GENERATION OF ASTROCYTES.
HZ408717 - JP 2015528002-A/1314: CHIRAL CONTROL.
LF404365 - JP 2015509366-A/358: GENERATION OF NEURAL STEM CELLS AND MOTOR NEURONS.
LG052051 - KR 1020150036642-A/1317: CHIRAL CONTROL.
MA353896 - JP 2018075017-A/358: GENERATION OF NEURAL STEM CELLS AND MOTOR NEURONS.
LF384407 - JP 2014500723-A/191910: Polycomb-Associated Non-Coding RNAs.
BC005384 - Homo sapiens glycoprotein, synaptic 2, mRNA (cDNA clone IMAGE:3935809), partial cds.
AK299134 - Homo sapiens cDNA FLJ58248 complete cds, highly similar to Synaptic glycoprotein SC2.
AK094087 - Homo sapiens cDNA FLJ36768 fis, clone ADIPS1000064, highly similar to Synaptic glycoprotein SC2.
DL491631 - Novel nucleic acids.
FW312399 - DETECTING NUCLEIC ACIDS.
FW364551 - Oligonucleotides for modulating target RNA activity.
HI964829 - Sequence 114 from Patent WO2010139812.
HI966431 - Sequence 751 from Patent WO2010139811.
HI967297 - Sequence 751 from Patent WO2010139810.
HV335388 - JP 2011097833-A/8: Using frequency of methylations of specific genes as head and neck tumor biomarker.
HV595463 - JP 2010539959-A/844: Micromirs.
HW612915 - WO 2014126233-A/5: Method for measuring miRNA, and therapeutic agent for cancer and pharmaceutical composition for cancer therapy containing the same.
HW669849 - JP 2013537538-A/580: THERAPEUTIC USES OF MICROVESICLES AND RELATED MICRORNAS.
HZ043156 - JP 2015510401-A/246: MESENCHYMAL STEM CELLS FOR IN VITRO MODELING AND CELL-BASED THERAPY OF HUMAN DISEASES AND BANKS THEREOF.
HZ074505 - JP 2013535982-A/596: Single-Stranded RNAi Agents Containing an Internal, Non-Nucleic Acid Spacer.
HZ081782 - JP 2015514392-A/246: MicroRNAS FOR THE GENERATION OF ASTROCYTES.
HZ158020 - JP 2015130862-A/844: Micromirs.
HZ186864 - JP 2015146814-A/613: Oligonucleotides for modulating target RNA activity.
HZ482476 - JP 2015535430-A/2982: TERMINALLY MODIFIED RNA.
HZ792407 - JP 2016504050-A/4152: SIGNAL-SENSOR POLYNUCLEOTIDES FOR THE ALTERATION OF CELLULAR PHENOTYPES.
JA400867 - Sequence 114 from Patent WO2011080318.
JA401845 - Sequence 114 from Patent WO2011080315.
JA402852 - Sequence 114 from Patent WO2011080316.
JA405483 - Sequence 114 from Patent EP2336353.
JA427229 - Sequence 562 from Patent WO2011072177.
JA429009 - Sequence 114 from Patent WO2011095623.
JA660783 - Sequence 237 from Patent WO2011131354.
JA791637 - Sequence 39 from Patent WO2012089772.
JB620690 - Sequence 670 from Patent WO2013063544.
JC244594 - Sequence 214 from Patent WO2012020308.
JC270189 - Sequence 580 from Patent WO2012020307.
JC515139 - Sequence 5392 from Patent WO2014113089.
JE978792 - Sequence 237 from Patent EP2865765.
LF160946 - JP 2016513950-A/1012: Oligomers with improved off-target profile.
LF404253 - JP 2015509366-A/246: GENERATION OF NEURAL STEM CELLS AND MOTOR NEURONS.
LP727057 - Sequence 751 from Patent EP2883966.
LP819327 - Sequence 751 from Patent EP3296406.
LP939269 - Sequence 751 from Patent EP3184651.
LQ072727 - Sequence 3051 from Patent EP2964234.
LX270646 - JP 2016056210-A/580: THERAPEUTIC USES OF MICROVESICLES AND RELATED MICRORNAS.
LY405528 - KR 1020160117535-A/833: POLY OLIGOMER COMPOUND WITH BIOCLEAVABLE CONJUGATES.
LZ234221 - JP 2017184756-A/613: Oligonucleotides for modulating target RNA activity.
MA260767 - JP 2017505623-A/833: POLY OLIGOMER COMPOUND WITH BIOCLEAVABLE CONJUGATES.
MA353784 - JP 2018075017-A/246: GENERATION OF NEURAL STEM CELLS AND MOTOR NEURONS.
MS833968 - Sequence 114 from Patent EP3112479.
AK315412 - Homo sapiens cDNA, FLJ96461, Homo sapiens glycoprotein, synaptic 2 (GPSN2), mRNA.
AK001416 - Homo sapiens cDNA FLJ10554 fis, clone NT2RP2002385, highly similar to Synaptic glycoprotein SC2.
BC007801 - Homo sapiens glycoprotein, synaptic 2, mRNA (cDNA clone MGC:14250 IMAGE:4128702), complete cds.
BC013881 - Homo sapiens glycoprotein, synaptic 2, mRNA (cDNA clone MGC:10603 IMAGE:3928698), complete cds.
BC005952 - Homo sapiens glycoprotein, synaptic 2, mRNA (cDNA clone MGC:14589 IMAGE:4249841), complete cds.
LF373202 - JP 2014500723-A/180705: Polycomb-Associated Non-Coding RNAs.
AF038958 - Homo sapiens synaptic glycoprotein SC2 spliced variant mRNA, complete cds.
GQ900916 - Homo sapiens clone HEL-T-28 epididymis secretory sperm binding protein mRNA, complete cds.
BC034484 - Homo sapiens glycoprotein, synaptic 2, mRNA (cDNA clone IMAGE:4823258).
BC002425 - Homo sapiens glycoprotein, synaptic 2, mRNA (cDNA clone MGC:1968 IMAGE:3163592), complete cds.
AF222742 - Homo sapiens synaptic glycoprotein SC2 (SC2) mRNA, complete cds.
AX771269 - Sequence 3 from Patent WO03027225.
AF038959 - Homo sapiens synaptic glycoprotein SC2 mRNA, complete cds.
AB529027 - Synthetic construct DNA, clone: pF1KB3393, Homo sapiens GPSN2 gene for trans-2,3-enoyl-CoA reductase, without stop codon, in Flexi system.
DQ891949 - Synthetic construct clone IMAGE:100004579; FLH181693.01X; RZPDo839G02136D glycoprotein, synaptic 2 (GPSN2) gene, encodes complete protein.
DQ895135 - Synthetic construct Homo sapiens clone IMAGE:100009595; FLH181689.01L; RZPDo839G02135D glycoprotein, synaptic 2 (GPSN2) gene, encodes complete protein.
GQ129437 - Synthetic construct Homo sapiens clone HAIB:100068520; DKFZo004G0234 glycoprotein, synaptic 2 protein (GPSN2) gene, partial cds.
EU832830 - Synthetic construct Homo sapiens clone HAIB:100067859; DKFZo008G0233 glycoprotein, synaptic 2 protein (GPSN2) gene, encodes complete protein.
BC000174 - Homo sapiens, clone IMAGE:2901253, mRNA, partial cds.
CU675805 - Synthetic construct Homo sapiens gateway clone IMAGE:100018821 5' read GPSN2 mRNA.
CR456892 - Homo sapiens full open reading frame cDNA clone RZPDo834D1211D for gene GPSN2, glycoprotein, synaptic 2; complete cds, incl. stopcodon.
BT007179 - Homo sapiens glycoprotein, synaptic 2 mRNA, complete cds.
KJ892790 - Synthetic construct Homo sapiens clone ccsbBroadEn_02184 TECR gene, encodes complete protein.
LF373196 - JP 2014500723-A/180699: Polycomb-Associated Non-Coding RNAs.
LF373195 - JP 2014500723-A/180698: Polycomb-Associated Non-Coding RNAs.
LF373194 - JP 2014500723-A/180697: Polycomb-Associated Non-Coding RNAs.
LF373193 - JP 2014500723-A/180696: Polycomb-Associated Non-Coding RNAs.
JD270591 - Sequence 251615 from Patent EP1572962.
JD191404 - Sequence 172428 from Patent EP1572962.
JD055348 - Sequence 36372 from Patent EP1572962.
MA646228 - JP 2017113010-A/4152: SIGNAL-SENSOR POLYNUCLEOTIDES FOR THE ALTERATION OF CELLULAR PHENOTYPES.
MA730793 - JP 2017125065-A/580: THERAPEUTIC USES OF MICROVESICLES AND RELATED MICRORNAS.
MA734112 - JP 2017140048-A/2982: TERMINALLY MODIFIED RNA.
MA619984 - JP 2018138019-A/191910: Polycomb-Associated Non-Coding RNAs.
MA608779 - JP 2018138019-A/180705: Polycomb-Associated Non-Coding RNAs.
MA608773 - JP 2018138019-A/180699: Polycomb-Associated Non-Coding RNAs.
MA608772 - JP 2018138019-A/180698: Polycomb-Associated Non-Coding RNAs.
MA608771 - JP 2018138019-A/180697: Polycomb-Associated Non-Coding RNAs.
MA608770 - JP 2018138019-A/180696: Polycomb-Associated Non-Coding RNAs.
MP045536 - Sequence 358 from Patent EP3401394.
MP084206 - Sequence 358 from Patent EP3401393.
MP045424 - Sequence 246 from Patent EP3401394.
MP084094 - Sequence 246 from Patent EP3401393.
MA803281 - JP 2018183181-A/4152: SIGNAL-SENSOR POLYNUCLEOTIDES FOR THE ALTERATION OF CELLULAR PHENOTYPES.
MB446372 - JP 2018143248-A/5: Method for measuring miRNA, and therapeutic agent for cancer and pharmaceutical composition for cancer therapy containing the same.

-  Biochemical and Signaling Pathways
  BioCyc Knowledge Library
PWY-7036 - very long chain fatty acid biosynthesis II
PWY-8041 - ultra-long-chain fatty acid biosynthesis

Reactome (by CSHL, EBI, and GO)

Protein Q9NZ01 (Reactome details) participates in the following event(s):

R-HSA-548831 TECR,TECRL dehydrogenate TOD-CoA to ST-CoA
R-HSA-75876 Synthesis of very long-chain fatty acyl-CoAs
R-HSA-75105 Fatty acyl-CoA biosynthesis
R-HSA-8978868 Fatty acid metabolism
R-HSA-556833 Metabolism of lipids
R-HSA-1430728 Metabolism

-  Other Names for This Gene
  Alternate Gene Symbols: B2RD55, ENST00000215567.1, ENST00000215567.2, ENST00000215567.3, ENST00000215567.4, ENST00000215567.5, ENST00000215567.6, ENST00000215567.7, ENST00000215567.8, ENST00000215567.9, GPSN2, NM_138501, O75350, Q6IBB2, Q9BWK3, Q9NZ01, Q9Y6P0, SC2, TECR_HUMAN, uc317cmd.1, uc317cmd.2
UCSC ID: ENST00000215567.10_4
RefSeq Accession: NM_138501.6
Protein: Q9NZ01 (aka TECR_HUMAN)

-  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.