Cytogenetic band 2q33.1NCBI: 2:197,500,379-197,503,449 on the plus strand, GRCh38.p14 (GCF_000001405.40), sequence NC_000002.12, annotation GCF_000001405.40-RS_2025_08 of 2025-08-01Coordinates are one-based with both ends included, as each source reports them.
Reading NCBI Gene and UniProt.Still reading. A first read of a gene can take a while; this page waits up to 30 seconds for it, and its scripts then bring in the panel, or a line saying what did not arrive.
02 / Transcripts and isoforms
The RNA a design targets
Ready in a moment
Reading NCBI Datasets and Ensembl.
03 / Expression by tissue
Where HSPE1 is expressed
Ready in a moment
14 / Silencing this gene
From HSPE1 to a sequence that silences it
The AUMsilence™ platform designs the sequences against the human HSPE1 transcripts.
01
Choose the region
A knockdown oligonucleotide can sit in the 5' untranslated region, the coding sequence or the 3' untranslated region, and all three are used. The coding sequence and the 3' untranslated region are the usual first choices for an RNase H design; the 5' end near the start codon suits a steric block. The map above shows where each region sits on the isoforms it draws.
02
Cover the isoforms you mean
An exon every isoform carries silences the whole gene; an exon only some isoforms carry silences those and spares the rest. Decide which you want before a sequence is chosen, and check the reference transcript (MANE Select in human; RefSeq Select and Ensembl canonical in mouse and rat) is the one your cells express.
03
Think across species early
The orthologs panel says whether mouse and rat carry the same gene. Whether one oligonucleotide can serve two species is a sequence question, settled at design by matching the candidate against each transcript, not by the protein identity shown there.
04
Check expression in your model
A transcript that is not expressed in your cells cannot show knockdown. Confirm the gene is expressed in the cell type and condition you will use, from your own data or a reference atlas, before the order. The expression panel above gives GTEx's median per tissue for a human gene; for mouse and rat it says that no atlas is on this page yet.
04 / Protein
The protein HSPE1 encodes
Ready in a moment
05 / Interactions
Proteins STRING associates with HSPE1
Ready in a moment
06 / Pathways
Where HSPE1 acts, as Reactome curates it
Ready in a moment
07 / Disease associations
Diseases linked to HSPE1
Ready in a moment
08 / Variants
Classified variants of HSPE1
Ready in a moment
09 / Constraint
How much variation HSPE1 tolerates
Ready in a moment
10 / Orthologs
The same gene in mouse, rat and human
Ready in a moment
11 /MicroRNAs
MicroRNAs hosted within HSPE1
Ready in a moment
12 / Long non-coding RNAs
Long non-coding RNAs at the HSPE1 locus
Ready in a moment
13 / Literature
Papers that mention HSPE1
Ready in a moment
05
Run the controls
A scramble control of the same chemistry, a positive control against a gene known to knock down in your cells, untreated cells, and a mock condition where a transfection reagent is used. Read knockdown at the RNA level first, then at the protein; the usage guide gives the timing and the concentrations to start from.
06
Pick the product
AUMsilence sdASO needs no transfection reagent and works in the cells that resist one. AUMsilence toASO is the transfection-optimised version of the same design, and AUMsiRNA™ is the siRNA route. The selection guide compares them.
Ensembl: 2:197,500,110-197,513,408 on the plus strand, GRCh38.p14 (GCA_000001405.29), release 116
This gene encodes a major heat shock protein which functions as a chaperonin.
NCBI Gene summary
1 RefSeq and 39 Ensembl transcripts on GRCh38.p14; MANE Select NM_002157.3.
NCBI Datasets · Ensembl
54 GTEx tissues; the highest median in Adrenal Gland, 404 TPM.
GTEx
102 residues, reviewed P61604; 10 entries from the member databases this page shows along the chain; mean pLDDT 87.62; 18 PDB entries.
UniProt · InterPro · AlphaFold DB · PDBe
The 25 highest-scoring STRING partners at or above a combined score of 0.4, of up to 25 asked for; HSPD1, GRPEL1, HSPA9 lead.
STRING v12.0
2 curated, 0 inferred Reactome pathways for P61604 in human, v98.
Reactome
256 Open Targets disease associations; neurodegenerative disease first, at 0.53.
Open Targets
ClinVar: 44 records for HSPE1, 34 pathogenic or likely pathogenic.
ClinVar
pLI 0.9909 and LOEUF 0.360 in gnomAD v4 (GRCh38), on ENST00000233893.10.
gnomAD
Mouse: 2 candidates named (Hspe1-rs1, Hspe1) and the votes differ; rat: 3 candidates named (Hspd1l2, Hspe1, AC095947.1) and the votes differ. RGD is not answering, so the ortholog list could not be shown. Try again later. Reference 34c11053-6c0.
Alliance · NCBI · Ensembl Compara
No annotated microRNA lies within HSPE1 in Ensembl release 116, on GRCh38.p14.
Ensembl · miRBase
No annotated long non-coding RNA overlaps HSPE1 in Ensembl release 116, on GRCh38.p14.
Ensembl
1,451 PubMed-indexed papers mention HSPE1 at Europe PMC, newest first. Europe PMC ignores letter case, so the count also covers another species' symbol spelled with the same letters.
Europe PMC
Gene summary
This gene encodes a major heat shock protein which functions as a chaperonin. Its structure consists of a heptameric ring which binds to another heat shock protein in order to form a symmetric, functional heterodimer which enhances protein folding in an ATP-dependent manner. This gene and its co-chaperonin, HSPD1, are arranged in a head-to-head orientation on chromosome 2. Naturally occurring read-through transcription occurs between this locus and the neighboring locus MOBKL3.
Provided by RefSeq, Feb 2011, through NCBI Gene. NCBI disclaimer
Co-chaperonin implicated in mitochondrial protein import and macromolecular assembly. Together with Hsp60, facilitates the correct folding of imported proteins. May also prevent misfolding and promote the refolding and proper assembly of unfolded polypeptides generated under stress conditions in the mitochondrial matrix (PubMed:11422376, PubMed:1346131, PubMed:7912672). The functional units of these chaperonins consist of heptameric rings of the large subunit Hsp60, which function as a back-to-back double ring. In a cyclic reaction, Hsp60 ring complexes bind one unfolded substrate protein per ring, followed by the binding of ATP and association with 2 heptameric rings of the co-chaperonin Hsp10. This leads to sequestration of the substrate protein in the inner cavity of Hsp60 where, for a certain period of time, it can fold undisturbed by other cell components. Synchronous hydrolysis of ATP in all Hsp60 subunits results in the dissociation of the chaperonin rings and the release of ADP and the folded substrate protein (Probable)
NCBI Gene summary · NCBI Gene annotation RS_2025_08 · read · NCBI Gene 3336Data from NCBI, provided as is; NCBI's policies and disclaimers apply.
UniProtKB function · 2026_04 · read · UniProt P61604UniProt data are available under the Creative Commons Attribution 4.0 licence.
Placed on GRCh38.p14 (GCF_000001405.40). MANE Select marks the one transcript RefSeq and Ensembl agree is the reference for this gene.
RefSeq 1 transcript
coding sequence, tall
untranslated region, thin
non-coding exon
intron, fixed width
Genomic strand: plus. Drawn 5' to 3', so exon 1 sits at the left here and at the lowest coordinate on the chromosome.
NM_002157.3NM_002157.3MANE Select
A window on one transcript
One pixel of the map above stands for several bases, and a block too short to see is drawn wider than its own scale, so the map chooses a region and the sequence here chooses the window. Click an exon on a row of the map, or drag across a row; then set the exact start and end below.
These controls are ready in a moment.
No transcript is chosen.
Once a window is chosen this panel shows its length, its G and C count as a percentage of that length, the letters it is made of, the exons it falls in, whether it crosses a junction, and its antisense strand.
scale
Drawn 5' to 3' from each transcript's exons as placed on the reference assembly; exon 1 is the 5' exon on the transcript's own strand. Exon blocks are to scale with each other; introns are drawn at one fixed width whatever their length, so the map is not to scale along the chromosome. Numbers are exon ranks along the strand; a rank is omitted where the exon is too narrow to carry it.
One pixel of the map above stands for several bases, and a block too short to see is drawn wider than its own scale, so the map chooses a region and the sequence here chooses the window. Click an exon on a row of the map, or drag across a row; then set the exact start and end below.
These controls are ready in a moment.
No transcript is chosen.
Once a window is chosen this panel shows its length, its G and C count as a percentage of that length, the letters it is made of, the exons it falls in, whether it crosses a junction, and its antisense strand.
Lengths are spliced lengths, as each source states them. Exon ranks follow the strand: on a minus-strand gene exon 1 has the highest genomic coordinate. Reference assembly for human: GRCh38.
ENST00001128965.1ENST00001128965.1
ENST00001117998.1ENST00001117998.1
ENST00001090322.1ENST00001090322.1
ENST00000978082.1ENST00000978082.1
ENST00001090299.1ENST00001090299.1
ENST00001128964.1ENST00001128964.1
ENST00001117999.1ENST00001117999.1
ENST00001090300.1ENST00001090300.1
ENST00001103561.1ENST00001103561.1
ENST00001090321.1ENST00001090321.1
ENST00000978081.1ENST00000978081.1
ENST00001128963.1ENST00001128963.1
ENST00001103555.1ENST00001103555.1
ENST00000409468.2ENST00000409468.2
ENST00000915250.2ENST00000915250.2
ENST00001138072.1ENST00001138072.1
ENST00001090296.1ENST00001090296.1
ENST00001090295.1ENST00001090295.1
ENST00001103557.1ENST00001103557.1
ENST00000915248.2ENST00000915248.2
ENST00001128966.1ENST00001128966.1
ENST00001103559.1ENST00001103559.1
ENST00001090298.1ENST00001090298.1
ENST00000915249.2ENST00000915249.2
ENST00001128962.1ENST00001128962.1
ENST00000915251.2ENST00000915251.2
ENST00001103558.1ENST00001103558.1
ENST00001034711.1ENST00001034711.1
ENST00001103560.1ENST00001103560.1
ENST00001103556.1ENST00001103556.1
ENST00001090314.1ENST00001090314.1
ENST00001103562.1ENST00001103562.1
ENST00000409729.2ENST00000409729.2
ENST00000915252.2ENST00000915252.2
ENST00000463841.1ENST00000463841.1
ENST00000465573.1ENST00000465573.1
ENST00000473395.1ENST00000473395.1
ENST00000495200.1ENST00000495200.1
scale
Drawn 5' to 3' from each transcript's exons as placed on the reference assembly; exon 1 is the 5' exon on the transcript's own strand. Exon blocks are to scale with each other; introns are drawn at one fixed width whatever their length, so the map is not to scale along the chromosome. Numbers are exon ranks along the strand; a rank is omitted where the exon is too narrow to carry it.
