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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.

rs1477800710

Current Build 156

Released September 21, 2022

Organism
Homo sapiens
Position
chr14:39350779 (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
T>C
Variation Type
SNV Single Nucleotide Variation
Frequency
C=0.000011 (3/264690, TOPMED)
C=0.000022 (3/138592, GnomAD)
C=0.00000 (0/14050, ALFA)
Clinical Significance
Not Reported in ClinVar
Gene : Consequence
MIA2 : Non Coding Transcript Variant
Publications
0 citations
Genomic View
See rs on genome

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: 20231103111315
Population Group Sample Size Ref Allele Alt Allele Ref HMOZ Alt HMOZ HTRZ HWEP
Total Global 14050 T=1.00000 C=0.00000 1.0 0.0 0.0 N/A
European Sub 9690 T=1.0000 C=0.0000 1.0 0.0 0.0 N/A
African Sub 2898 T=1.0000 C=0.0000 1.0 0.0 0.0 N/A
African Others Sub 114 T=1.000 C=0.000 1.0 0.0 0.0 N/A
African American Sub 2784 T=1.0000 C=0.0000 1.0 0.0 0.0 N/A
Asian Sub 112 T=1.000 C=0.000 1.0 0.0 0.0 N/A
East Asian Sub 86 T=1.00 C=0.00 1.0 0.0 0.0 N/A
Other Asian Sub 26 T=1.00 C=0.00 1.0 0.0 0.0 N/A
Latin American 1 Sub 146 T=1.000 C=0.000 1.0 0.0 0.0 N/A
Latin American 2 Sub 610 T=1.000 C=0.000 1.0 0.0 0.0 N/A
South Asian Sub 98 T=1.00 C=0.00 1.0 0.0 0.0 N/A
Other Sub 496 T=1.000 C=0.000 1.0 0.0 0.0 N/A


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
TopMed Global Study-wide 264690 T=0.999989 C=0.000011
gnomAD - Genomes Global Study-wide 138592 T=0.999978 C=0.000022
gnomAD - Genomes European Sub 75710 T=0.99996 C=0.00004
gnomAD - Genomes African Sub 40756 T=1.00000 C=0.00000
gnomAD - Genomes American Sub 13562 T=1.00000 C=0.00000
gnomAD - Genomes Ashkenazi Jewish Sub 3306 T=1.0000 C=0.0000
gnomAD - Genomes East Asian Sub 3128 T=1.0000 C=0.0000
gnomAD - Genomes Other Sub 2130 T=1.0000 C=0.0000
Allele Frequency Aggregator Total Global 14050 T=1.00000 C=0.00000
Allele Frequency Aggregator European Sub 9690 T=1.0000 C=0.0000
Allele Frequency Aggregator African Sub 2898 T=1.0000 C=0.0000
Allele Frequency Aggregator Latin American 2 Sub 610 T=1.000 C=0.000
Allele Frequency Aggregator Other Sub 496 T=1.000 C=0.000
Allele Frequency Aggregator Latin American 1 Sub 146 T=1.000 C=0.000
Allele Frequency Aggregator Asian Sub 112 T=1.000 C=0.000
Allele Frequency Aggregator South Asian Sub 98 T=1.00 C=0.00
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 14 NC_000014.9:g.39350779T>C
GRCh37.p13 chr 14 NC_000014.8:g.39819983T>C
MIA2 RefSeqGene NG_030349.3:g.121859T>C
Gene: MIA2, MIA SH3 domain ER export factor 2 (plus strand)
Molecule type Change Amino acid[Codon] SO Term
MIA2 transcript variant 18 NM_001354145.2:c.1879+180…

NM_001354145.2:c.1879+1802T>C

N/A Intron Variant
MIA2 transcript variant 21 NM_001354148.1:c.2161+180…

NM_001354148.1:c.2161+1802T>C

N/A Intron Variant
MIA2 transcript variant 27 NM_001354154.2:c.2248+180…

NM_001354154.2:c.2248+1802T>C

N/A Intron Variant
MIA2 transcript variant 28 NM_001354155.2:c.2119+180…

NM_001354155.2:c.2119+1802T>C

N/A Intron Variant
MIA2 transcript variant 4 NM_203356.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 5 NM_001247988.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 15 NM_001354142.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 11 NM_001354138.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 16 NM_001354143.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 20 NM_001354147.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 22 NM_001354149.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 25 NM_001354152.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 7 NM_001247990.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 26 NM_001354153.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 1 NM_005930.4:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 13 NM_001354140.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 30 NM_001354157.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 14 NM_001354141.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 24 NM_001354151.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 29 NM_001354156.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 2 NM_203354.3:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 23 NM_001354150.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 17 NM_001354144.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 19 NM_001354146.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 3 NM_203355.3:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 10 NM_001354137.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 12 NM_001354139.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 6 NM_001247989.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant 8 NM_001329214.4:c. N/A Genic Downstream Transcript Variant
MIA2 transcript variant 9 NM_054024.4:c. N/A Genic Downstream Transcript Variant
MIA2 transcript variant 31 NR_148721.1:n.3004T>C N/A Non Coding Transcript Variant
MIA2 transcript variant 32 NR_148722.2:n.3041T>C N/A Non Coding Transcript Variant
MIA2 transcript variant 33 NR_148723.2:n.2931T>C N/A Non Coding Transcript Variant
MIA2 transcript variant X1 XM_024449592.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X2 XM_024449593.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X3 XM_024449594.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X4 XM_024449595.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X5 XM_047431398.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X6 XM_024449596.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X7 XM_047431399.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X11 XM_017021314.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X12 XM_017021315.3:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X13 XM_017021316.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X14 XM_011536778.3:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X15 XM_047431403.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X16 XM_017021317.3:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X17 XM_017021330.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X18 XM_017021318.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X19 XM_017021319.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X20 XM_047431405.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X21 XM_047431406.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X22 XM_047431407.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X23 XM_047431408.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X24 XM_047431409.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X25 XM_017021323.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X26 XM_017021324.3:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X27 XM_024449598.2:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X28 XM_047431410.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X29 XM_047431411.1:c.*515= N/A 3 Prime UTR Variant
MIA2 transcript variant X8 XM_024449597.2:c. N/A Genic Downstream Transcript Variant
MIA2 transcript variant X9 XM_047431401.1:c. N/A Genic Downstream Transcript Variant
MIA2 transcript variant X10 XM_047431402.1:c. N/A Genic Downstream Transcript Variant
MIA2 transcript variant X30 XM_047431412.1:c. N/A Genic Downstream 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

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 T= C
GRCh38.p14 chr 14 NC_000014.9:g.39350779= NC_000014.9:g.39350779T>C
GRCh37.p13 chr 14 NC_000014.8:g.39819983= NC_000014.8:g.39819983T>C
MIA2 RefSeqGene NG_030349.3:g.121859= NG_030349.3:g.121859T>C
MIA2 transcript variant 1 NM_005930.4:c.*515= NM_005930.4:c.*515T>C
MIA2 transcript variant 1 NM_005930.3:c.*515= NM_005930.3:c.*515T>C
MIA2 transcript variant 2 NM_203354.3:c.*515= NM_203354.3:c.*515T>C
MIA2 transcript variant 2 NM_203354.2:c.*515= NM_203354.2:c.*515T>C
MIA2 transcript variant 3 NM_203355.3:c.*515= NM_203355.3:c.*515T>C
MIA2 transcript variant 3 NM_203355.2:c.*515= NM_203355.2:c.*515T>C
MIA2 transcript variant 25 NM_001354152.3:c.*515= NM_001354152.3:c.*515T>C
MIA2 transcript variant 25 NM_001354152.2:c.*515= NM_001354152.2:c.*515T>C
MIA2 transcript variant 25 NM_001354152.1:c.*515= NM_001354152.1:c.*515T>C
MIA2 transcript variant 32 NR_148722.2:n.3041= NR_148722.2:n.3041T>C
MIA2 transcript variant 32 NR_148722.1:n.3302= NR_148722.1:n.3302T>C
MIA2 transcript variant 24 NM_001354151.2:c.*515= NM_001354151.2:c.*515T>C
MIA2 transcript variant 24 NM_001354151.1:c.*515= NM_001354151.1:c.*515T>C
MIA2 transcript variant 6 NM_001247989.2:c.*515= NM_001247989.2:c.*515T>C
MIA2 transcript variant 6 NM_001247989.1:c.*515= NM_001247989.1:c.*515T>C
MIA2 transcript variant 10 NM_001354137.2:c.*515= NM_001354137.2:c.*515T>C
MIA2 transcript variant 10 NM_001354137.1:c.*515= NM_001354137.1:c.*515T>C
MIA2 transcript variant 13 NM_001354140.2:c.*515= NM_001354140.2:c.*515T>C
MIA2 transcript variant 13 NM_001354140.1:c.*515= NM_001354140.1:c.*515T>C
MIA2 transcript variant 33 NR_148723.2:n.2931= NR_148723.2:n.2931T>C
MIA2 transcript variant 33 NR_148723.1:n.3192= NR_148723.1:n.3192T>C
MIA2 transcript variant 23 NM_001354150.2:c.*515= NM_001354150.2:c.*515T>C
MIA2 transcript variant 23 NM_001354150.1:c.*515= NM_001354150.1:c.*515T>C
MIA2 transcript variant 30 NM_001354157.2:c.*515= NM_001354157.2:c.*515T>C
MIA2 transcript variant 30 NM_001354157.1:c.*515= NM_001354157.1:c.*515T>C
MIA2 transcript variant 7 NM_001247990.2:c.*515= NM_001247990.2:c.*515T>C
MIA2 transcript variant 7 NM_001247990.1:c.*515= NM_001247990.1:c.*515T>C
MIA2 transcript variant 14 NM_001354141.2:c.*515= NM_001354141.2:c.*515T>C
MIA2 transcript variant 14 NM_001354141.1:c.*515= NM_001354141.1:c.*515T>C
MIA2 transcript variant 4 NM_203356.2:c.*515= NM_203356.2:c.*515T>C
MIA2 transcript variant 19 NM_001354146.2:c.*515= NM_001354146.2:c.*515T>C
MIA2 transcript variant 19 NM_001354146.1:c.*515= NM_001354146.1:c.*515T>C
MIA2 transcript variant 12 NM_001354139.2:c.*515= NM_001354139.2:c.*515T>C
MIA2 transcript variant 12 NM_001354139.1:c.*515= NM_001354139.1:c.*515T>C
MIA2 transcript variant 29 NM_001354156.2:c.*515= NM_001354156.2:c.*515T>C
MIA2 transcript variant 29 NM_001354156.1:c.*515= NM_001354156.1:c.*515T>C
MIA2 transcript variant 26 NM_001354153.2:c.*515= NM_001354153.2:c.*515T>C
MIA2 transcript variant 26 NM_001354153.1:c.*515= NM_001354153.1:c.*515T>C
MIA2 transcript variant 17 NM_001354144.2:c.*515= NM_001354144.2:c.*515T>C
MIA2 transcript variant 17 NM_001354144.1:c.*515= NM_001354144.1:c.*515T>C
MIA2 transcript variant 20 NM_001354147.1:c.*515= NM_001354147.1:c.*515T>C
MIA2 transcript variant 31 NR_148721.1:n.3004= NR_148721.1:n.3004T>C
MIA2 transcript variant 5 NM_001247988.1:c.*515= NM_001247988.1:c.*515T>C
MIA2 transcript variant 11 NM_001354138.1:c.*515= NM_001354138.1:c.*515T>C
MIA2 transcript variant 22 NM_001354149.1:c.*515= NM_001354149.1:c.*515T>C
MIA2 transcript variant 15 NM_001354142.1:c.*515= NM_001354142.1:c.*515T>C
MIA2 transcript variant 16 NM_001354143.1:c.*515= NM_001354143.1:c.*515T>C
MIA2 transcript variant 8 NM_001329214.3:c.*515= NM_001329214.3:c.*515T>C
MIA2 transcript variant X16 XM_017021317.3:c.*515= XM_017021317.3:c.*515T>C
MIA2 transcript variant X14 XM_011536778.3:c.*515= XM_011536778.3:c.*515T>C
MIA2 transcript variant X12 XM_017021315.3:c.*515= XM_017021315.3:c.*515T>C
MIA2 transcript variant X26 XM_017021324.3:c.*515= XM_017021324.3:c.*515T>C
MIA2 transcript variant X1 XM_024449592.2:c.*515= XM_024449592.2:c.*515T>C
MIA2 transcript variant X2 XM_024449593.2:c.*515= XM_024449593.2:c.*515T>C
MIA2 transcript variant X3 XM_024449594.2:c.*515= XM_024449594.2:c.*515T>C
MIA2 transcript variant X4 XM_024449595.2:c.*515= XM_024449595.2:c.*515T>C
MIA2 transcript variant X6 XM_024449596.2:c.*515= XM_024449596.2:c.*515T>C
MIA2 transcript variant 8 NM_001329214.2:c.*515= NM_001329214.2:c.*515T>C
MIA2 transcript variant X11 XM_017021314.2:c.*515= XM_017021314.2:c.*515T>C
MIA2 transcript variant X13 XM_017021316.2:c.*515= XM_017021316.2:c.*515T>C
MIA2 transcript variant X17 XM_017021330.2:c.*515= XM_017021330.2:c.*515T>C
MIA2 transcript variant X27 XM_024449598.2:c.*515= XM_024449598.2:c.*515T>C
MIA2 transcript variant X18 XM_017021318.2:c.*515= XM_017021318.2:c.*515T>C
MIA2 transcript variant X19 XM_017021319.2:c.*515= XM_017021319.2:c.*515T>C
MIA2 transcript variant X25 XM_017021323.2:c.*515= XM_017021323.2:c.*515T>C
MIA2 transcript variant X7 XM_047431399.1:c.*515= XM_047431399.1:c.*515T>C
MIA2 transcript variant X5 XM_047431398.1:c.*515= XM_047431398.1:c.*515T>C
MIA2 transcript variant 8 NM_001329214.1:c.*515= NM_001329214.1:c.*515T>C
CTAGE5 transcript variant 5 NM_203357.1:c.*515= NM_203357.1:c.*515T>C
MIA2 transcript variant X15 XM_047431403.1:c.*515= XM_047431403.1:c.*515T>C
MIA2 transcript variant X20 XM_047431405.1:c.*515= XM_047431405.1:c.*515T>C
MIA2 transcript variant X21 XM_047431406.1:c.*515= XM_047431406.1:c.*515T>C
MIA2 transcript variant X22 XM_047431407.1:c.*515= XM_047431407.1:c.*515T>C
MIA2 transcript variant X24 XM_047431409.1:c.*515= XM_047431409.1:c.*515T>C
MIA2 transcript variant X28 XM_047431410.1:c.*515= XM_047431410.1:c.*515T>C
MIA2 transcript variant X29 XM_047431411.1:c.*515= XM_047431411.1:c.*515T>C
MIA2 transcript variant X23 XM_047431408.1:c.*515= XM_047431408.1:c.*515T>C
MIA2 transcript variant 18 NM_001354145.2:c.1879+1802= NM_001354145.2:c.1879+1802T>C
MIA2 transcript variant 21 NM_001354148.1:c.2161+1802= NM_001354148.1:c.2161+1802T>C
MIA2 transcript variant 27 NM_001354154.2:c.2248+1802= NM_001354154.2:c.2248+1802T>C
MIA2 transcript variant 28 NM_001354155.2:c.2119+1802= NM_001354155.2:c.2119+1802T>C
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#.

2 SubSNP, 3 Frequency submissions
No Submitter Submission ID Date (Build)
1 GNOMAD ss4276459189 Apr 26, 2021 (155)
2 TOPMED ss4967456544 Apr 26, 2021 (155)
3 gnomAD - Genomes NC_000014.9 - 39350779 Apr 26, 2021 (155)
4 TopMed NC_000014.9 - 39350779 Apr 26, 2021 (155)
5 ALFA NC_000014.9 - 39350779 Apr 26, 2021 (155)
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
448513716, 183002203, 12113115015, ss4276459189, ss4967456544 NC_000014.9:39350778:T:C NC_000014.9:39350778:T: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 rs1477800710

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