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← Primer database

Primer database

CD36

CD36 molecule (CD36 blood group)

Homo sapiens

PublicationChen et al. 2024

Sequences

Forward (5′→3′)

GGCTGTGACCGGAACTGTG

Reverse (5′→3′)

AGGTCTCCAACTGGCATTAGAA

Amplicon

92 bp

estimated from mapping

Primer Tm (°C)

ConditionsForwardReverseAverageΔ F/R
qPCR master mix65.062.563.72.5
Primer-BLAST default61.059.160.01.9

qPCR master mix: Owczarzy 2004/2008 · 250 nM primer · 50 mM Na⁺ · 3 mM Mg²⁺ · 0.8 mM dNTP

Primer-BLAST default: SantaLucia 1998 salt corr. · 50 nM primer · 50 mM Na⁺ · 1.5 mM Mg²⁺ · 0.6 mM dNTP

Bold, underlined base = 3′ end (polymerase extension point).

Primer QC

GC% · Forward

63.2%

GC% · Reverse

45.5%

Self-dimer ΔG · Fwd (any position)

-3.9 kcal/mol

Self-dimer ΔG · Fwd (3′ end)

No duplex found

Self-dimer ΔG · Rev (any position)

-1.3 kcal/mol

Self-dimer ΔG · Rev (3′ end)

1.0 kcal/mol

Heterodimer ΔG (F×R, any position)

-2.7 kcal/mol

Heterodimer ΔG (F×R, 3′ end)

0.5 kcal/mol

ΔG at 37 °C · SantaLucia 1998 NN parameters · < −6 kcal/mol = significant dimer risk · "3′ end" is restricted to duplexes anchored at a primer's own 3′ terminal base (polymerase-extendable); "any position" is the most stable duplex anywhere in the primer. Estimated screening value. For comprehensive dimer analysis, validate with Primer3.

Source

PMID

39697326(Europe PMC)

Citation

Chen et al. 2024

Genomic mapping

Ensembl gene

ENSG00000135218 ↗

NCBI Gene ID

948

Assembly

GRCh38

Cross-check

✓ENST00000435819
✓ENST00000309881
ENST00000534394
✓ENST00000438020
✓ENST00000436384
✓ENST00000428497
✓ENST00000482059
✓ENST00000394788
✓ENST00000447544★
✓ENST00000426978
✓ENST00000413265
✓ENST00000419819
ENST00000488048
✓ENST00000433696
✓ENST00000432207
✓ENST00000538969
✓ENST00000544133
✓ENST00000855923
✓ENST00000855924
✓ENST00000855925
✓ENST00000855926
✓ENST00000855927
✓ENST00000855928
✓ENST00000855929
✓ENST00000855930
✓ENST00000855931
✓ENST00000855932
✓ENST00000855933
✓ENST00000855934
✓ENST00000855935
✓ENST00000855936
✓ENST00000855937
✓ENST00000855938
✓ENST00000855939
✓ENST00000855940
✓ENST00000855941
✓ENST00000855942
✓ENST00000855943
✓ENST00000855944
✓ENST00000855945
✓ENST00000855946
✓ENST00000855947
✓ENST00000855948
✓ENST00000855949
✓ENST00000855950
✓ENST00000855951
✓ENST00000855952
✓ENST00000855953
✓ENST00000855954
✓ENST00000855955
✓ENST00000855956
✓ENST00000855957
✓ENST00000855958
✓ENST00000855959
✓ENST00000855960
✓ENST00000855961
✓ENST00000855962
✓ENST00000855963
✓ENST00000855964
✓ENST00000855965
✓ENST00000855966
✓ENST00000956914
✓ENST00000956915
✓ENST00000956916
✓ENST00000956917
✓ENST00000956918
✓ENST00000956919
✓ENST00000956920
✓ENST00000956921
✓ENST00000956922
✓ENST00000956923
✓ENST00000956924
✓ENST00000956925
✓ENST00000956926
✓ENST00000956927
✓ENST00000956928
✓ENST00000956929
✓ENST00000956930
✓ENST00000956931
✓ENST00000956932
✓ENST00000956933
✓ENST00000956934
✓ENST00000956935
✓ENST00000956936
✓ENST00000956937
✓ENST00000956938
✓ENST00000956939
✓ENST00000956940
✓ENST00000956941
✓ENST00000956942
✓ENST00000956943
✓ENST00000956944
✓ENST00000956945
✓ENST00000956946
✓ENST00000956947
✓ENST00000956948
✓ENST00000956949
✓ENST00000956950
✓ENST00000956951
✓ENST00000956952
✓ENST00000956953
✓ENST00000956954
✓ENST00000956955
✓ENST00000956956
✓ENST00000956957
✓ENST00000956958
✓ENST00000956959
✓ENST00000956960
✓ENST00000956961
✓ENST00000956962
✓ENST00000956963
✓ENST00000956964
✓ENST00000956965
✓ENST00000978551
✓ENST00000978553
✓ENST00001025233
✓ENST00001025240
✓ENST00001025251
✓ENST00001025267
✓ENST00001025269
✓ENST00001098240
✓ENST00001112494
✓ENST00001121152
✓ENST00001126305
✓ENST00001126306
✓ENST00001137071
250bp116.7kb121bp1.1kb~96bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.37.1kb74bp21.3kb77bp9.8kb137bp45.9kb~436bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.3.5kb57bp5.8kb21bp8.2kb441bp3.4kb~332bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.616bp~188bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.1.1kb77bp5.0kb126bp1.7kb~338bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.3.6kb48bp1.5kb~231bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.11bp~363bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.723bp86bp2.5kb162bp3.5kb~94bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.143bp~35bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.2bp~499bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.9.7kb~161bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.4.4kb~148bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.1.8kb~180bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.1.2kb92bp717bp150bp1.1kb~47bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.3.5kb~70bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.954bp~192bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.753bp~119bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.729bp~74bpThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.277bp~6.2kbThis is the outer span across every isoform's exon here. They don't all agree on the exact boundary (alternative splice site), so hover a row's own box below for its real length.
exon presentprimer binds hereconfirmed amplicongap = exon skipped~bp = boundary varies
How do I read this diagram?

Each row is one transcript, aligned on a shared axis. A gap means that isoform skips this exonic region. Each row's box is drawn at that isoform's own real exon length, which can be narrower than the column (alternative splice site); hover a box for its exact size. A ~amber header bp means isoforms don't all agree on this region's boundary, while a plain header means they do. Navy blocks mark where the primers bind, and green (with a ✓ by the name) means this isoform has a confirmed working amplicon, not just exon overlap. A row with a “‹ exons” / “exons ›” hint instead of any box means that isoform's exons exist but sit outside the current scroll position (a truncated isoform or alternate transcription start site) — click the hint to jump to them. Click a row to load it below.

★ = Ensembl canonical transcript (reference model, not necessarily the most expressed isoform)

Showing: ENST00000435819

250bp1116.7kb121bp21.1kb96bp358.4kb77bp499.8kb94bp5470bp209bp69.7kb161bp74.4kb148bp81.8kb180bp91.2kb92bp101.9kb47bp113.5kb70bp12954bp188bp13757bp119bp14729bp74bp15511bp55bp16573bp4.9kb17FRPredicted from the amplicon's own GC%+length (von Ahsen et al. 2001, at the same qPCR buffer as the primer Tm above: 50 mM Na⁺ plus 3 mM Mg²⁺ less 0.8 mM dNTP, as a sodium equivalent), not the SantaLucia model used for primer Tm, which isn't valid at this length. A screening estimate for ranking amplicons — that relation was fitted on oligonucleotide duplexes, so applying it at amplicon length carries more error than its published ±1.9 °C, and it is not a melt-peak prediction.92 bp amplicon · predicted amplicon Tm 87.0 °C
CD36 · ENST00000435819⚠ Single-exon · may amplify genomic DNA

Off-target specificity

Specific

No paired forward+reverse off-target amplicon found against nt (whole genome/transcriptome). Screen requires >=2 total mismatches including >=2 within the last 5bp at the 3' end to clear a hit (NCBI Primer-BLAST-style stringency); hits with >=6 total mismatches are dropped as implausible.

Efficiency measurements

Ideal range:Dilution series 1.90–2.10·LinRegPCR 1.70–1.90·unknown method: not scored
No measurements yet for this primer pair.

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