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dbSNP Short Genetic Variations

Welcome to the Reference SNP (rs) Report

All alleles are reported in the Forward orientation. Click on the Variant Details tab for details on Genomic Placement, Gene, and Amino Acid changes. HGVS names are in the HGVS tab.

Reference SNP (rs) Report

This page reports data for a single dbSNP Reference SNP variation (RefSNP or rs) from the new redesigned dbSNP build.
Top of the page reports a concise summary for the rs, with more specific details included in the corresponding tabs below.
All alleles are reported in the Forward orientation. Use the Genomic View to inspect the nucleotides flanking the variant, and its neighbors.
For more information see Help documentation.


Current Build 155

Released April 9, 2021

Homo sapiens
chr16:3850598 (GRCh38.p13) Help

The anchor position for this RefSNP. Includes all nucleotides potentially affected by this change, thus it can differ from HGVS, which is right-shifted. See here for details.

Variation Type
SNV Single Nucleotide Variation
T=0.000004 (1/264690, TOPMED)
T=0.000004 (1/251428, GnomAD_exome)
T=0.000007 (1/140296, GnomAD) (+ 3 more)
T=0.000008 (1/121304, ExAC)
T=0.00000 (0/14050, ALFA)
T=0.00008 (1/12994, GO-ESP)
Clinical Significance
Reported in ClinVar
Gene : Consequence
CREBBP : Missense Variant
1 citation
Genomic View
See rs on genome

Variant Details tab shows known variant placements on genomic sequences: chromosomes (NC_), RefSeqGene, pseudogenes or genomic regions (NG_), and in a separate table: on transcripts (NM_) and protein sequences (NP_). The corresponding transcript and protein locations are listed in adjacent lines, along with molecular consequences from Sequence Ontology. When no protein placement is available, only the transcript is listed. Column "Codon[Amino acid]" shows the actual base change in the format of "Reference > Alternate" allele, including the nucleotide codon change in transcripts, and the amino acid change in proteins, respectively, allowing for known ribosomal slippage sites. To view nucleotides adjacent to the variant use the Genomic View at the bottom of the page - zoom into the sequence until the nucleotides around the variant become visible.

Genomic Placements
Sequence name Change
GRCh38.p13 chr 16 NC_000016.10:g.3850598G>T
GRCh37.p13 chr 16 NC_000016.9:g.3900599G>T
CREBBP RefSeqGene (LRG_1426) NG_009873.2:g.35116C>A
CREBBP RefSeqGene NG_009873.1:g.34523C>A
Gene: CREBBP, CREB binding protein (minus strand)
Molecule type Change Amino acid[Codon] SO Term
CREBBP transcript variant 2 NM_001079846.1:c.497C>A P [CCT] > H [CAT] Coding Sequence Variant
CREB-binding protein isoform b NP_001073315.1:p.Pro166His P (Pro) > H (His) Missense Variant
CREBBP transcript variant 1 NM_004380.3:c.497C>A P [CCT] > H [CAT] Coding Sequence Variant
CREB-binding protein isoform a NP_004371.2:p.Pro166His P (Pro) > H (His) Missense Variant
CREBBP transcript variant X5 XM_011522381.2:c. N/A Genic Upstream Transcript Variant
CREBBP transcript variant X1 XM_017022944.1:c.497C>A P [CCT] > H [CAT] Coding Sequence Variant
CREB-binding protein isoform X1 XP_016878433.1:p.Pro166His P (Pro) > H (His) Missense Variant
CREBBP transcript variant X2 XM_005255124.4:c.497C>A P [CCT] > H [CAT] Coding Sequence Variant
CREB-binding protein isoform X2 XP_005255181.1:p.Pro166His P (Pro) > H (His) Missense Variant
CREBBP transcript variant X3 XM_006720848.3:c.497C>A P [CCT] > H [CAT] Coding Sequence Variant
CREB-binding protein isoform X3 XP_006720911.1:p.Pro166His P (Pro) > H (His) Missense Variant
CREBBP transcript variant X4 XM_005255125.4:c.497C>A P [CCT] > H [CAT] Coding Sequence Variant
CREB-binding protein isoform X4 XP_005255182.1:p.Pro166His P (Pro) > H (His) Missense Variant
CREBBP transcript variant X6 XM_011522382.3:c.497C>A P [CCT] > H [CAT] Coding Sequence Variant
CREB-binding protein isoform X6 XP_011520684.1:p.Pro166His P (Pro) > H (His) Missense Variant

Clinical Significance tab shows a list of clinical significance entries from ClinVar associated with the variation, per allele. Click on the RCV accession (i.e. RCV000001615.2) or Allele ID (i.e. 12274) to access full ClinVar report.

Allele: T (allele ID: 71512 )
ClinVar Accession Disease Names Clinical Significance
RCV000050244.5 not provided Uncertain-Significance

ALFA Allele Frequency
The ALFA project provide aggregate allele frequency from dbGaP. More information is available on the project page including descriptions, data access, and terms of use.

Release Version: 20201027095038
Population Group Sample Size Ref Allele Alt Allele
Total Global 14050 G=1.00000 T=0.00000
European Sub 9690 G=1.0000 T=0.0000
African Sub 2898 G=1.0000 T=0.0000
African Others Sub 114 G=1.000 T=0.000
African American Sub 2784 G=1.0000 T=0.0000
Asian Sub 112 G=1.000 T=0.000
East Asian Sub 86 G=1.00 T=0.00
Other Asian Sub 26 G=1.00 T=0.00
Latin American 1 Sub 146 G=1.000 T=0.000
Latin American 2 Sub 610 G=1.000 T=0.000
South Asian Sub 98 G=1.00 T=0.00
Other Sub 496 G=1.000 T=0.000


Frequency tab displays a table of the reference and alternate allele frequencies reported by various studies and populations. Table lines, where Population="Global" refer to the entire study population, whereas lines, where Group="Sub", refer to a study-specific population subgroupings (i.e. AFR, CAU, etc.), if available. Frequency for the alternate allele (Alt Allele) is a ratio of samples observed-to-total, where the numerator (observed samples) is the number of chromosomes in the study with the minor allele present (found in "Sample size", where Group="Sub"), and the denominator (total samples) is the total number of all chromosomes in the study for the variant (found in "Sample size", where Group="Study-wide" and Population="Global").

Study Population Group Sample Size Ref Allele Alt Allele
TopMed Global Study-wide 264690 G=0.999996 T=0.000004
gnomAD - Exomes Global Study-wide 251428 G=0.999996 T=0.000004
gnomAD - Exomes European Sub 135400 G=0.999993 T=0.000007
gnomAD - Exomes Asian Sub 49010 G=1.00000 T=0.00000
gnomAD - Exomes American Sub 34590 G=1.00000 T=0.00000
gnomAD - Exomes African Sub 16212 G=1.00000 T=0.00000
gnomAD - Exomes Ashkenazi Jewish Sub 10078 G=1.00000 T=0.00000
gnomAD - Exomes Other Sub 6138 G=1.0000 T=0.0000
gnomAD - Genomes Global Study-wide 140296 G=0.999993 T=0.000007
gnomAD - Genomes European Sub 75966 G=0.99999 T=0.00001
gnomAD - Genomes African Sub 42064 G=1.00000 T=0.00000
gnomAD - Genomes American Sub 13660 G=1.00000 T=0.00000
gnomAD - Genomes Ashkenazi Jewish Sub 3324 G=1.0000 T=0.0000
gnomAD - Genomes East Asian Sub 3132 G=1.0000 T=0.0000
gnomAD - Genomes Other Sub 2150 G=1.0000 T=0.0000
ExAC Global Study-wide 121304 G=0.999992 T=0.000008
ExAC Europe Sub 73330 G=0.99999 T=0.00001
ExAC Asian Sub 25166 G=1.00000 T=0.00000
ExAC American Sub 11578 G=1.00000 T=0.00000
ExAC African Sub 10324 G=1.00000 T=0.00000
ExAC Other Sub 906 G=1.000 T=0.000
GO Exome Sequencing Project Global Study-wide 12994 G=0.99992 T=0.00008
GO Exome Sequencing Project European American Sub 8600 G=0.9999 T=0.0001
GO Exome Sequencing Project African American Sub 4394 G=1.0000 T=0.0000

Aliases tab displays HGVS names representing the variant placements and allele changes on genomic, transcript and protein sequences, per allele. HGVS name is an expression for reporting sequence accession and version, sequence type, position, and allele change. The column "Note" can have two values: "diff" means that there is a difference between the reference allele (variation interval) at the placement reported in HGVS name and the reference alleles reported in other HGVS names, and "rev" means that the sequence of this variation interval at the placement reported in HGVS name is in reverse orientation to the sequence(s) of this variation in other HGVS names not labeled as "rev".

Placement G= T
GRCh38.p13 chr 16 NC_000016.10:g.3850598= NC_000016.10:g.3850598G>T
GRCh37.p13 chr 16 NC_000016.9:g.3900599= NC_000016.9:g.3900599G>T
CREBBP RefSeqGene (LRG_1426) NG_009873.2:g.35116= NG_009873.2:g.35116C>A
CREBBP RefSeqGene NG_009873.1:g.34523= NG_009873.1:g.34523C>A
CREBBP transcript variant 1 NM_004380.3:c.497= NM_004380.3:c.497C>A
CREBBP transcript variant 1 NM_004380.2:c.497= NM_004380.2:c.497C>A
CREBBP transcript variant 2 NM_001079846.1:c.497= NM_001079846.1:c.497C>A
CREBBP transcript variant X2 XM_005255124.4:c.497= XM_005255124.4:c.497C>A
CREBBP transcript variant X1 XM_005255124.1:c.497= XM_005255124.1:c.497C>A
CREBBP transcript variant X4 XM_005255125.4:c.497= XM_005255125.4:c.497C>A
CREBBP transcript variant X2 XM_005255125.1:c.497= XM_005255125.1:c.497C>A
CREBBP transcript variant X3 XM_006720848.3:c.497= XM_006720848.3:c.497C>A
CREBBP transcript variant X6 XM_011522382.3:c.497= XM_011522382.3:c.497C>A
CREBBP transcript variant X1 XM_017022944.1:c.497= XM_017022944.1:c.497C>A
CREB-binding protein isoform a NP_004371.2:p.Pro166= NP_004371.2:p.Pro166His
CREB-binding protein isoform b NP_001073315.1:p.Pro166= NP_001073315.1:p.Pro166His
CREB-binding protein isoform X2 XP_005255181.1:p.Pro166= XP_005255181.1:p.Pro166His
CREB-binding protein isoform X4 XP_005255182.1:p.Pro166= XP_005255182.1:p.Pro166His
CREB-binding protein isoform X3 XP_006720911.1:p.Pro166= XP_006720911.1:p.Pro166His
CREB-binding protein isoform X6 XP_011520684.1:p.Pro166= XP_011520684.1:p.Pro166His
CREB-binding protein isoform X1 XP_016878433.1:p.Pro166= XP_016878433.1:p.Pro166His

Submissions tab displays variations originally submitted to dbSNP, now supporting this RefSNP cluster (rs). We display Submitter handle, Submission identifier, Date and Build number, when the submission appeared for the first time. Direct submissions to dbSNP have Submission ID in the form of an ss-prefixed number (ss#). Other supporting variations are listed in the table without ss#.

9 SubSNP, 6 Frequency, 1 ClinVar submissions
No Submitter Submission ID Date (Build)
1 NHLBI-ESP ss713280665 Apr 25, 2013 (138)
2 EGL ss836188030 Oct 18, 2013 (136)
3 EVA_EXAC ss1692126407 Apr 01, 2015 (144)
4 GNOMAD ss2741707259 Nov 08, 2017 (151)
5 TOPMED ss3238290723 Nov 08, 2017 (151)
6 ILLUMINA ss3625685988 Oct 12, 2018 (152)
7 EVA ss3824981728 Apr 27, 2020 (154)
8 GNOMAD ss4295777024 Apr 26, 2021 (155)
9 TOPMED ss5005440462 Apr 26, 2021 (155)
10 ExAC NC_000016.9 - 3900599 Oct 12, 2018 (152)
11 gnomAD - Genomes NC_000016.10 - 3850598 Apr 26, 2021 (155)
12 gnomAD - Exomes NC_000016.9 - 3900599 Jul 13, 2019 (153)
13 GO Exome Sequencing Project NC_000016.9 - 3900599 Oct 12, 2018 (152)
14 TopMed NC_000016.10 - 3850598 Apr 26, 2021 (155)
15 ALFA NC_000016.10 - 3850598 Apr 26, 2021 (155)
16 ClinVar RCV000050244.5 Oct 12, 2018 (152)

History tab displays RefSNPs (Associated ID) from previous builds (Build) that now support the current RefSNP, and the dates, when the history was updated for each Associated ID (History Updated).

Added to this RefSNP Cluster:
Submission IDs Observation SPDI Canonical SPDI Source RSIDs
2521192, 10982430, 1438935, ss713280665, ss1692126407, ss2741707259, ss3625685988, ss3824981728 NC_000016.9:3900598:G:T NC_000016.10:3850597:G:T (self)
RCV000050244.5, 480864882, 138169430, 220986123, 12242910761, ss836188030, ss3238290723, ss4295777024, ss5005440462 NC_000016.10:3850597:G:T NC_000016.10:3850597:G:T (self)

Publications tab displays PubMed articles citing the variation as a listing of PMID, Title, Author, Year, Journal, ordered by Year, descending.

1 citation for rs374119348
PMID Title Author Year Journal
23757202 Free the data: one laboratory's approach to knowledge-based genomic variant classification and preparation for EMR integration of genomic data. Bean LJ et al. 2013 Human mutation

The Flanks tab provides retrieving flanking sequences of a SNP on all molecules that have placements.

Genome context:
Select flank length:

Genomic regions, transcripts, and products
Top Help

NCBI Graphical Sequence Viewer display of the genomic region, transcripts and protein products for the reported RefSNP (rs).
Use the zoom option to view the nucleotides around the RefSNP and find other neighboring RefSNPs.
Visit Sequence Viewer for help with navigating inside the display and modifying the selection of displayed data tracks.

Software version is: 2.0.1.post596+ae089ad