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dbSNP Short Genetic Variations

Examples: rs268, BRCA1 and more Advanced search

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.

rs1475604813

Current Build 156

Released September 21, 2022

Organism
Homo sapiens
Position
chr19:34194501 (GRCh38.p14) 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.

Alleles
A>C
Variation Type
SNV Single Nucleotide Variation
Frequency
C=0.000004 (1/251418, GnomAD_exome)
Clinical Significance
Not Reported in ClinVar
Gene : Consequence
LSM14A : Synonymous Variant
Publications
0 citations
Genomic View
See rs on genome
Help

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").

Download
Study Population Group Sample Size Ref Allele Alt Allele
gnomAD - Exomes Global Study-wide 251418 A=0.999996 C=0.000004
gnomAD - Exomes European Sub 135364 A=1.000000 C=0.000000
gnomAD - Exomes Asian Sub 49008 A=1.00000 C=0.00000
gnomAD - Exomes American Sub 34576 A=1.00000 C=0.00000
gnomAD - Exomes African Sub 16256 A=0.99994 C=0.00006
gnomAD - Exomes Ashkenazi Jewish Sub 10080 A=1.00000 C=0.00000
gnomAD - Exomes Other Sub 6134 A=1.0000 C=0.0000
Help

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.p14 chr 19 NC_000019.10:g.34194501A>C
GRCh37.p13 chr 19 NC_000019.9:g.34685406A>C
GRCh38.p14 chr 19 alt locus HSCHR19_1_CTG3_1 NW_003315963.1:g.42242A>C
Gene: LSM14A, LSM14A mRNA processing body assembly factor (plus strand)
Molecule type Change Amino acid[Codon] SO Term
LSM14A transcript variant 15 NM_001384432.1:c.-279= N/A 5 Prime UTR Variant
LSM14A transcript variant 17 NM_001384434.1:c.-177= N/A 5 Prime UTR Variant
LSM14A transcript variant 14 NM_001384431.1:c.-177= N/A 5 Prime UTR Variant
LSM14A transcript variant 20 NM_001384437.1:c.-231= N/A 5 Prime UTR Variant
LSM14A transcript variant 16 NM_001384433.1:c.-177= N/A 5 Prime UTR Variant
LSM14A transcript variant 13 NM_001384430.1:c.-148= N/A 5 Prime UTR Variant
LSM14A transcript variant 11 NM_001384428.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform k NP_001371357.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 18 NM_001384435.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform p NP_001371364.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 8 NM_001384425.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform h NP_001371354.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 9 NM_001384426.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform i NP_001371355.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 6 NM_001384423.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform f NP_001371352.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 19 NM_001384436.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform q NP_001371365.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 12 NM_001384429.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform l NP_001371358.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 10 NM_001384427.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform j NP_001371356.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 5 NM_001384422.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform e NP_001371351.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 2 NM_015578.4:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform b NP_056393.2:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 3 NM_001384420.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform c NP_001371349.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 7 NM_001384424.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform g NP_001371353.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 4 NM_001384421.1:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform d NP_001371350.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 1 NM_001114093.3:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform a NP_001107565.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant 23 NR_169263.1:n.284A>C N/A Non Coding Transcript Variant
LSM14A transcript variant 22 NR_169262.1:n.284A>C N/A Non Coding Transcript Variant
LSM14A transcript variant 25 NR_169265.1:n.284A>C N/A Non Coding Transcript Variant
LSM14A transcript variant 26 NR_169266.1:n.284A>C N/A Non Coding Transcript Variant
LSM14A transcript variant 24 NR_169264.1:n.284A>C N/A Non Coding Transcript Variant
LSM14A transcript variant 21 NR_169261.1:n.284A>C N/A Non Coding Transcript Variant
LSM14A transcript variant X1 XM_005258719.6:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform X1 XP_005258776.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant X2 XM_005258720.6:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform X2 XP_005258777.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant X3 XM_005258721.6:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform X3 XP_005258778.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
LSM14A transcript variant X4 XM_011526708.4:c.145A>C R [AGA] > R [CGA] Coding Sequence Variant
protein LSM14 homolog A isoform X4 XP_011525010.1:p.Arg49= R (Arg) > R (Arg) Synonymous Variant
Help

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.

Not Reported in ClinVar
Help

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 A= C
GRCh38.p14 chr 19 NC_000019.10:g.34194501= NC_000019.10:g.34194501A>C
GRCh37.p13 chr 19 NC_000019.9:g.34685406= NC_000019.9:g.34685406A>C
GRCh38.p14 chr 19 alt locus HSCHR19_1_CTG3_1 NW_003315963.1:g.42242= NW_003315963.1:g.42242A>C
LSM14A transcript variant X1 XM_005258719.6:c.145= XM_005258719.6:c.145A>C
LSM14A transcript variant X1 XM_005258719.5:c.145= XM_005258719.5:c.145A>C
LSM14A transcript variant X1 XM_005258719.4:c.145= XM_005258719.4:c.145A>C
LSM14A transcript variant X1 XM_005258719.3:c.145= XM_005258719.3:c.145A>C
LSM14A transcript variant X1 XM_005258719.2:c.145= XM_005258719.2:c.145A>C
LSM14A transcript variant X1 XM_005258719.1:c.145= XM_005258719.1:c.145A>C
LSM14A transcript variant X2 XM_005258720.6:c.145= XM_005258720.6:c.145A>C
LSM14A transcript variant X2 XM_005258720.5:c.145= XM_005258720.5:c.145A>C
LSM14A transcript variant X2 XM_005258720.4:c.145= XM_005258720.4:c.145A>C
LSM14A transcript variant X2 XM_005258720.3:c.145= XM_005258720.3:c.145A>C
LSM14A transcript variant X2 XM_005258720.2:c.145= XM_005258720.2:c.145A>C
LSM14A transcript variant X2 XM_005258720.1:c.145= XM_005258720.1:c.145A>C
LSM14A transcript variant X3 XM_005258721.6:c.145= XM_005258721.6:c.145A>C
LSM14A transcript variant X3 XM_005258721.5:c.145= XM_005258721.5:c.145A>C
LSM14A transcript variant X3 XM_005258721.4:c.145= XM_005258721.4:c.145A>C
LSM14A transcript variant X3 XM_005258721.3:c.145= XM_005258721.3:c.145A>C
LSM14A transcript variant X3 XM_005258721.2:c.145= XM_005258721.2:c.145A>C
LSM14A transcript variant X3 XM_005258721.1:c.145= XM_005258721.1:c.145A>C
LSM14A transcript variant X4 XM_011526708.4:c.145= XM_011526708.4:c.145A>C
LSM14A transcript variant X7 XM_011526708.3:c.145= XM_011526708.3:c.145A>C
LSM14A transcript variant X7 XM_011526708.2:c.145= XM_011526708.2:c.145A>C
LSM14A transcript variant X4 XM_011526708.1:c.145= XM_011526708.1:c.145A>C
LSM14A transcript variant 2 NM_015578.4:c.145= NM_015578.4:c.145A>C
LSM14A transcript variant 2 NM_015578.3:c.145= NM_015578.3:c.145A>C
LSM14A transcript variant 2 NM_015578.2:c.145= NM_015578.2:c.145A>C
LSM14A transcript variant 1 NM_001114093.3:c.145= NM_001114093.3:c.145A>C
LSM14A transcript variant 1 NM_001114093.2:c.145= NM_001114093.2:c.145A>C
LSM14A transcript variant 1 NM_001114093.1:c.145= NM_001114093.1:c.145A>C
LSM14A transcript variant 17 NM_001384434.1:c.-177= NM_001384434.1:c.-177A>C
LSM14A transcript variant 16 NM_001384433.1:c.-177= NM_001384433.1:c.-177A>C
LSM14A transcript variant 14 NM_001384431.1:c.-177= NM_001384431.1:c.-177A>C
LSM14A transcript variant 21 NR_169261.1:n.284= NR_169261.1:n.284A>C
LSM14A transcript variant 24 NR_169264.1:n.284= NR_169264.1:n.284A>C
LSM14A transcript variant 15 NM_001384432.1:c.-279= NM_001384432.1:c.-279A>C
LSM14A transcript variant 13 NM_001384430.1:c.-148= NM_001384430.1:c.-148A>C
LSM14A transcript variant 23 NR_169263.1:n.284= NR_169263.1:n.284A>C
LSM14A transcript variant 26 NR_169266.1:n.284= NR_169266.1:n.284A>C
LSM14A transcript variant 25 NR_169265.1:n.284= NR_169265.1:n.284A>C
LSM14A transcript variant 3 NM_001384420.1:c.145= NM_001384420.1:c.145A>C
LSM14A transcript variant 5 NM_001384422.1:c.145= NM_001384422.1:c.145A>C
LSM14A transcript variant 6 NM_001384423.1:c.145= NM_001384423.1:c.145A>C
LSM14A transcript variant 20 NM_001384437.1:c.-231= NM_001384437.1:c.-231A>C
LSM14A transcript variant 9 NM_001384426.1:c.145= NM_001384426.1:c.145A>C
LSM14A transcript variant 11 NM_001384428.1:c.145= NM_001384428.1:c.145A>C
LSM14A transcript variant 8 NM_001384425.1:c.145= NM_001384425.1:c.145A>C
LSM14A transcript variant 7 NM_001384424.1:c.145= NM_001384424.1:c.145A>C
LSM14A transcript variant 12 NM_001384429.1:c.145= NM_001384429.1:c.145A>C
LSM14A transcript variant 18 NM_001384435.1:c.145= NM_001384435.1:c.145A>C
LSM14A transcript variant 22 NR_169262.1:n.284= NR_169262.1:n.284A>C
LSM14A transcript variant 19 NM_001384436.1:c.145= NM_001384436.1:c.145A>C
LSM14A transcript variant 4 NM_001384421.1:c.145= NM_001384421.1:c.145A>C
LSM14A transcript variant 10 NM_001384427.1:c.145= NM_001384427.1:c.145A>C
protein LSM14 homolog A isoform X1 XP_005258776.1:p.Arg49= XP_005258776.1:p.Arg49=
protein LSM14 homolog A isoform X2 XP_005258777.1:p.Arg49= XP_005258777.1:p.Arg49=
protein LSM14 homolog A isoform X3 XP_005258778.1:p.Arg49= XP_005258778.1:p.Arg49=
protein LSM14 homolog A isoform X4 XP_011525010.1:p.Arg49= XP_011525010.1:p.Arg49=
protein LSM14 homolog A isoform b NP_056393.2:p.Arg49= NP_056393.2:p.Arg49=
protein LSM14 homolog A isoform a NP_001107565.1:p.Arg49= NP_001107565.1:p.Arg49=
protein LSM14 homolog A isoform c NP_001371349.1:p.Arg49= NP_001371349.1:p.Arg49=
protein LSM14 homolog A isoform e NP_001371351.1:p.Arg49= NP_001371351.1:p.Arg49=
protein LSM14 homolog A isoform f NP_001371352.1:p.Arg49= NP_001371352.1:p.Arg49=
protein LSM14 homolog A isoform i NP_001371355.1:p.Arg49= NP_001371355.1:p.Arg49=
protein LSM14 homolog A isoform k NP_001371357.1:p.Arg49= NP_001371357.1:p.Arg49=
protein LSM14 homolog A isoform h NP_001371354.1:p.Arg49= NP_001371354.1:p.Arg49=
protein LSM14 homolog A isoform g NP_001371353.1:p.Arg49= NP_001371353.1:p.Arg49=
protein LSM14 homolog A isoform l NP_001371358.1:p.Arg49= NP_001371358.1:p.Arg49=
protein LSM14 homolog A isoform p NP_001371364.1:p.Arg49= NP_001371364.1:p.Arg49=
protein LSM14 homolog A isoform q NP_001371365.1:p.Arg49= NP_001371365.1:p.Arg49=
protein LSM14 homolog A isoform d NP_001371350.1:p.Arg49= NP_001371350.1:p.Arg49=
protein LSM14 homolog A isoform j NP_001371356.1:p.Arg49= NP_001371356.1:p.Arg49=
Help

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#.

1 SubSNP, 1 Frequency submissions
No Submitter Submission ID Date (Build)
1 GNOMAD ss2743879039 Nov 08, 2017 (151)
2 gnomAD - Exomes NC_000019.9 - 34685406 Jul 13, 2019 (153)
Help

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
13192545, ss2743879039 NC_000019.9:34685405:A:C NC_000019.10:34194500:A:C (self)
Help

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

No publications for rs1475604813

Help

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.post820+afb47a3d