Cytogenetic band Xq27.2NCBI: X:141,589,708-141,590,762 on the plus strand, GRCh38.p14 (GCF_000001405.40), sequence NC_000023.11, annotation GCF_000001405.40-RS_2025_08 of 2025-08-01Ensembl: reading the location.Coordinates 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
Reading NCBI Datasets and Ensembl.
Ready in a moment
Reading NCBI Datasets and Ensembl.
03 / Expression by tissue
Where SPANXA2 is expressed
Reading GTEx and the Human Protein Atlas.
Ready in a moment
14 / Silencing this gene
From SPANXA2 to a sequence that silences it
The AUMsilence™ platform designs the sequences against the human transcripts on this page. Six decisions are yours before it does. What is written under each is AUM's guidance; the timings and the concentrations are in the usage guide below.
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.
Still reading. A first read of a gene can take a while; this page waits up to 80 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
GTEx's medians say how much of this gene's RNA the sampled tissues carried, tissue by tissue, in transcripts per million, and the Human Protein Atlas adds how specific that expression is and where the protein sits in the cell. Read the profile for the tissue your cells come from, then check your own model: a transcript that is not expressed in the cells you will use cannot show knockdown, and a bulk tissue median is not a cell line.
The median is the middle sample of a tissue, so a gene expressed in a few cells of a mixed tissue reads low here and may still be the one your cell type needs. Nothing on this panel is adjusted or averaged across tissues; each figure is the source's own, and a tissue GTEx did not sample is absent from the chart.
04 / Protein
The protein SPANXA2 encodes
Reading UniProt, InterPro, AlphaFold DB and PDBe.Still reading. A first read of a gene can take a while; this page waits up to 80 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
Ready in a moment
05 / Interactions
Proteins STRING associates with SPANXA2
Reading STRING.Still reading. A first read of a gene can take a while; this page waits up to 50 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
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06 / Pathways
Where SPANXA2 acts, as Reactome curates it
Reading UniProt and Reactome.Still reading. A first read of a gene can take a while; this page waits up to 60 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
Ready in a moment
07 / Disease associations
Diseases linked to SPANXA2
Ready in a moment
08 / Variants
Classified variants of SPANXA2
Reading ClinVar.Still reading. A first read of a gene can take a while; this page waits up to 60 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
Ready in a moment
09 / Constraint
How much variation SPANXA2 tolerates
Reading gnomAD and Open Targets.Still reading. A first read of a gene can take a while; this page waits up to 45 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
Ready in a moment
10 / Orthologs
The same gene in mouse, rat and human
Reading the Alliance, NCBI, Ensembl Compara and RGD.
Ready in a moment
11 /MicroRNAs
MicroRNAs hosted within SPANXA2
Reading Ensembl and miRBase.
Ready in a moment
12 / Long non-coding RNAs
Long non-coding RNAs at the SPANXA2 locus
Reading Ensembl.
Ready in a moment
13 / Literature
Papers that mention SPANXA2
Reading Europe PMC.Still reading. A first read of a gene can take a while; this page waits up to 55 seconds for it, and its scripts then bring in this line, or a line saying what did not arrive.
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.
For research use only. Not for use in diagnostic or therapeutic procedures.
Temporally regulated transcription and translation of several…
NCBI Gene summary
28 Open Targets disease associations; neoplasm first, at 0.04.
Open Targets
Gene summary
Temporally regulated transcription and translation of several testis-specific genes is required to initiate the series of molecular and morphological changes in the male germ cell lineage necessary for the formation of mature spermatozoa. This gene is a member of the SPANX family of cancer/testis-associated genes, which are located in a cluster on chromosome X. The SPANX genes encode differentially expressed testis-specific proteins that localize to various subcellular compartments. This particular gene maps to chromosome X in a head-to-head orientation with SPANX family member A1 and appears to be a duplication of that locus. The protein encoded by this gene targets to the nucleus where it associates with nuclear vacuoles and the redundant nuclear envelope. Based on its association with these poorly characterized regions of the sperm nucleus, this protein provides a biochemical marker to study unique structures in spermatazoa while attempting to further define its role in spermatogenesis.
Provided by RefSeq, Jul 2008, through NCBI Gene. NCBI disclaimer
Protein function
Sperm protein associated with the nucleus on the X chromosome A, Q9NS26
This UniProt entry carries no function text.
NCBI Gene summary · NCBI Gene annotation RS_2025_08 · read · NCBI Gene 728712Data from NCBI, provided as is; NCBI's policies and disclaimers apply.
UniProtKB function · 2026_03 · read · UniProt Q9NS26UniProt data are available under the Creative Commons Attribution 4.0 licence.
gnomAD holds SPANXA2 but its record carries no constraint metrics.
gnomAD
54 GTEx tissues; the highest median in Testis, 0.708 TPM.
GTEx
736 PubMed-indexed papers mention SPANXA2 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
97 residues, reviewed Q9NS26; 2 entries from the member databases this page shows along the chain; mean pLDDT 65.62; no experimental structure at PDBe.
UniProt · InterPro · AlphaFold DB · PDBe
Reactome v97 maps no pathway to Q9NS26 in human.
Reactome
The 25 highest-scoring STRING partners at or above a combined score of 0.4, of up to 25 asked for; SPANXA1, SPANXN4, AKAP4 lead.
1 RefSeq and 1 Ensembl transcripts on GRCh38.p14; MANE Select NM_145662.4.
NCBI Datasets · Ensembl
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_145662.4NM_145662.4MANE Select
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.
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.
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.
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.
ClinVar: 209 records for SPANXA2, 190 pathogenic or likely pathogenic.
ClinVar
Mouse: no ortholog named by the 3 votes that answered; rat: no ortholog named by the 3 votes that answered. RGD is not answering, so the ortholog list could not be shown. Try again later. Reference aa4968bc-a95.
Alliance · NCBI · Ensembl Compara
Mouse: no ortholog is named for this gene: the Alliance, NCBI and Ensembl Compara answered and named none.
Rat: no ortholog is named for this gene: the Alliance, NCBI and Ensembl Compara answered and named none.
