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dbSNP Short Genetic Variations

Reference SNP (rs) Report

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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.

rs9381199

Current Build 151

Released July 17, 2018

Organism
Homo sapiens
Position
chr6:42594234 (GRCh38.p7) 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
C>T
Variation Type
SNV Single Nucleotide Variation
Frequency
None
Clinical Significance
Not Reported in ClinVar
Gene : Consequence
UBR2 : Missense Variant
Publications
0 citations
Genomic View
See rs on genome
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.p7 chr 6 NC_000006.12:g.42594234C>T
GRCh37.p13 chr 6 NC_000006.11:g.42561972C>T
Gene: UBR2, ubiquitin protein ligase E3 component n-recognin 2 (plus strand)
Molecule type Change Amino acid[Codon] SO Term
UBR2 transcript variant 1 NM_015255.2:c.461C>T T [ACT] > I [ATT] Coding Sequence Variant
E3 ubiquitin-protein ligase UBR2 isoform 1 NP_056070.1:p.Thr...

NP_056070.1:p.Thr154Ile

T (Thr) > I (Ile) Missense Variant
UBR2 transcript variant 2 NM_001184801.1:c....

NM_001184801.1:c.461C>T

T [ACT] > I [ATT] Coding Sequence Variant
E3 ubiquitin-protein ligase UBR2 isoform 2 NP_001171730.1:p....

NP_001171730.1:p.Thr154Ile

T (Thr) > I (Ile) Missense Variant
UBR2 transcript variant X12 XM_005248966.3:c. N/A 5 Prime UTR Variant
UBR2 transcript variant X8 XM_011514439.1:c. N/A Genic Upstream Transcript Variant
UBR2 transcript variant X9 XM_011514440.1:c. N/A Genic Upstream Transcript Variant
UBR2 transcript variant X10 XM_011514441.2:c. N/A Genic Upstream Transcript Variant
UBR2 transcript variant X1 XM_011514438.2:c....

XM_011514438.2:c.542C>T

T [ACT] > I [ATT] Coding Sequence Variant
E3 ubiquitin-protein ligase UBR2 isoform X1 XP_011512740.2:p....

XP_011512740.2:p.Thr181Ile

T (Thr) > I (Ile) Missense Variant
UBR2 transcript variant X2 XM_017010594.1:c....

XM_017010594.1:c.542C>T

T [ACT] > I [ATT] Coding Sequence Variant
E3 ubiquitin-protein ligase UBR2 isoform X2 XP_016866083.1:p....

XP_016866083.1:p.Thr181Ile

T (Thr) > I (Ile) Missense Variant
UBR2 transcript variant X3 XM_017010595.1:c....

XM_017010595.1:c.542C>T

T [ACT] > I [ATT] Coding Sequence Variant
E3 ubiquitin-protein ligase UBR2 isoform X3 XP_016866084.1:p....

XP_016866084.1:p.Thr181Ile

T (Thr) > I (Ile) Missense Variant
UBR2 transcript variant X4 XM_005248965.4:c....

XM_005248965.4:c.461C>T

T [ACT] > I [ATT] Coding Sequence Variant
E3 ubiquitin-protein ligase UBR2 isoform X4 XP_005249022.1:p....

XP_005249022.1:p.Thr154Ile

T (Thr) > I (Ile) Missense Variant
UBR2 transcript variant X5 XM_017010596.1:c....

XM_017010596.1:c.461C>T

T [ACT] > I [ATT] Coding Sequence Variant
E3 ubiquitin-protein ligase UBR2 isoform X5 XP_016866085.1:p....

XP_016866085.1:p.Thr154Ile

T (Thr) > I (Ile) Missense Variant
UBR2 transcript variant X7 XM_017010597.1:c....

XM_017010597.1:c.542C>T

T [ACT] > I [ATT] Coding Sequence Variant
E3 ubiquitin-protein ligase UBR2 isoform X6 XP_016866086.1:p....

XP_016866086.1:p.Thr181Ile

T (Thr) > I (Ile) Missense Variant
UBR2 transcript variant X6 XR_001743284.1:n....

XR_001743284.1:n.959C>T

N/A Non Coding Transcript Variant
UBR2 transcript variant X11 XR_001743285.1:n....

XR_001743285.1:n.961C>T

N/A Non Coding Transcript 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

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").

None
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 C= T Note
GRCh38.p7 chr 6 NC_000006.12:g.42594234C= NC_000006.12:g.42594234C>T
GRCh37.p13 chr 6 NC_000006.11:g.42561972C= NC_000006.11:g.42561972C>T
UBR2 transcript variant X4 XM_005248965.4:c.461C= XM_005248965.4:c.461C>T
UBR2 transcript variant X1 XM_005248965.1:c.461C= XM_005248965.1:c.461C>T
UBR2 transcript variant X12 XM_005248966.3:c.-1645C= XM_005248966.3:c.-1645C>T
UBR2 transcript variant X1 XM_011514438.2:c.542C= XM_011514438.2:c.542C>T
UBR2 transcript variant 1 NM_015255.2:c.461C= NM_015255.2:c.461C>T
UBR2 transcript variant X6 XR_001743284.1:n.959C= XR_001743284.1:n.959C>T
UBR2 transcript variant X3 XM_017010595.1:c.542C= XM_017010595.1:c.542C>T
UBR2 transcript variant X5 XM_017010596.1:c.461C= XM_017010596.1:c.461C>T
UBR2 transcript variant X2 XM_017010594.1:c.542C= XM_017010594.1:c.542C>T
UBR2 transcript variant X11 XR_001743285.1:n.961C= XR_001743285.1:n.961C>T
UBR2 transcript variant X7 XM_017010597.1:c.542C= XM_017010597.1:c.542C>T
UBR2 transcript variant 2 NM_001184801.1:c.461C= NM_001184801.1:c.461C>T
E3 ubiquitin-protein ligase UBR2 isoform X4 XP_005249022.1:p.Thr154= XP_005249022.1:p.Thr154Ile
E3 ubiquitin-protein ligase UBR2 isoform X1 XP_011512740.2:p.Thr181= XP_011512740.2:p.Thr181Ile
E3 ubiquitin-protein ligase UBR2 isoform 1 NP_056070.1:p.Thr154= NP_056070.1:p.Thr154Ile
E3 ubiquitin-protein ligase UBR2 isoform X3 XP_016866084.1:p.Thr181= XP_016866084.1:p.Thr181Ile
E3 ubiquitin-protein ligase UBR2 isoform X5 XP_016866085.1:p.Thr154= XP_016866085.1:p.Thr154Ile
E3 ubiquitin-protein ligase UBR2 isoform X2 XP_016866083.1:p.Thr181= XP_016866083.1:p.Thr181Ile
E3 ubiquitin-protein ligase UBR2 isoform X6 XP_016866086.1:p.Thr181= XP_016866086.1:p.Thr181Ile
E3 ubiquitin-protein ligase UBR2 isoform 2 NP_001171730.1:p.Thr154= NP_001171730.1:p.Thr154Ile
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#.

8 SubSNP submissions
No Submitter Submission ID Date (Build)
1 SC_SNP ss12867252 Dec 05, 2003 (119)
2 ILLUMINA ss74855250 Dec 06, 2007 (129)
3 KRIBB_YJKIM ss119590835 Dec 01, 2009 (131)
4 ILLUMINA ss174830399 Jul 04, 2010 (132)
5 ILLUMINA ss537593426 Sep 08, 2015 (146)
6 ILLUMINA ss3629535414 Jul 20, 2018 (151)
7 ILLUMINA ss3638627501 Jul 20, 2018 (151)
8 ILLUMINA ss3643568797 Jul 20, 2018 (151)
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
ss3643568797 NC_000006.10:42669949:C= NC_000006.12:42594233:C=
ss537593426, ss3629535414, ss3638627501 NC_000006.11:42561971:C= NC_000006.12:42594233:C= (self)
ss12867252 NT_007592.13:33359098:C= NC_000006.12:42594233:C= (self)
ss74855250, ss119590835, ss174830399 NT_007592.15:42501971:C= NC_000006.12:42594233:C= (self)
ss3643568797 NC_000006.10:42669949:C>T NC_000006.12:42594233:C>T
ss537593426, ss3629535414, ss3638627501 NC_000006.11:42561971:C>T NC_000006.12:42594233:C>T (self)
ss12867252 NT_007592.13:33359098:C>T NC_000006.12:42594233:C>T (self)
ss74855250, ss119590835, ss174830399 NT_007592.15:42501971:C>T NC_000006.12:42594233:C>T (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 rs9381199

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: 0.1.4.post833+d3ba21e