SNP Links for Gene (Select 10663) - SNP

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Select item 14915028511.

rs1491502851 has merged into rs10562426 [Homo sapiens]

Variant type:: DELINS
Alleles:: GTGTGTGTGT>-,GTGT,GTGTGT,GTGTGTGT,GTGTGTGTGTGT,GTGTGTGTGTGTGT,GTGTGTGTGTGTGTGT [Show Flanks]
Chromosome:: 3:45944208 (GRCh38)
3:45985700 (GRCh37)
Canonical SPDI:: NC_000003.12:45944196:TGTGTGTGTGTGTGTGTGTGT:TGTGTGTGTGT,NC_000003.12:45944196:TGTGTGTGTGTGTGTGTGTGT:TGTGTGTGTGTGTGT,NC_000003.12:45944196:TGTGTGTGTGTGTGTGTGTGT:TGTGTGTGTGTGTGTGT,NC_000003.12:45944196:TGTGTGTGTGTGTGTGTGTGT:TGTGTGTGTGTGTGTGTGT,NC_000003.12:45944196:TGTGTGTGTGTGTGTGTGTGT:TGTGTGTGTGTGTGTGTGTGTGT,NC_000003.12:45944196:TGTGTGTGTGTGTGTGTGTGT:TGTGTGTGTGTGTGTGTGTGTGTGT,NC_000003.12:45944196:TGTGTGTGTGTGTGTGTGTGT:TGTGTGTGTGTGTGTGTGTGTGTGTGT
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,upstream_transcript_variant,genic_upstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: TGTGTGTGTGTGTGT=0./0 (ALFA)
-=0.000004/1 (TOPMED)
-=0.221101/1096 (1000Genomes)
HGVS:: NC_000003.12:g.45944198GT[5], NC_000003.12:g.45944198GT[7], NC_000003.12:g.45944198GT[8], NC_000003.12:g.45944198GT[9], NC_000003.12:g.45944198GT[11], NC_000003.12:g.45944198GT[12], NC_000003.12:g.45944198GT[13], NC_000003.11:g.45985690GT[5], NC_000003.11:g.45985690GT[7], NC_000003.11:g.45985690GT[8], NC_000003.11:g.45985690GT[9], NC_000003.11:g.45985690GT[11], NC_000003.11:g.45985690GT[12], NC_000003.11:g.45985690GT[13], NG_031955.1:g.56609CA[5], NG_031955.1:g.56609CA[7], NG_031955.1:g.56609CA[8], NG_031955.1:g.56609CA[9], NG_031955.1:g.56609CA[11], NG_031955.1:g.56609CA[12], NG_031955.1:g.56609CA[13]

Select item 14906715842.

rs1490671584 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 3:45946833 (GRCh38)
3:45988325 (GRCh37)
Canonical SPDI:: NC_000003.12:45946832:C:T
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: coding_sequence_variant,missense_variant,intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.000008/2 (GnomAD_exomes)
T=0.000008/2 (TOPMED)
HGVS:: NC_000003.12:g.45946833C>T, NC_000003.11:g.45988325C>T, NG_031955.1:g.53992G>A, NM_006564.2:c.352C>T, NM_006564.1:c.352C>T, NM_001386436.1:c.352C>T, NM_001386437.1:c.352C>T, NM_001386435.1:c.352C>T, NP_006555.1:p.Leu118Phe, NP_001373365.1:p.Leu118Phe, NP_001373366.1:p.Leu118Phe, NP_001373364.1:p.Leu118Phe

Select item 14905918533.

rs1490591853 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 3:45939195 (GRCh38)
3:45980687 (GRCh37)
Canonical SPDI:: NC_000003.12:45939194:C:T
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: intron_variant,upstream_transcript_variant,genic_downstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
HGVS:: NC_000003.12:g.45939195C>T, NC_000003.11:g.45980687C>T, NG_031955.1:g.61630G>A

Select item 14903373864.

rs1490337386 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 3:45943458 (GRCh38)
3:45984950 (GRCh37)
Canonical SPDI:: NC_000003.12:45943457:T:C
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: intron_variant,upstream_transcript_variant,genic_downstream_transcript_variant,genic_upstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0.000132/2 (ALFA)
C=0.000014/2 (GnomAD)
C=0.000446/2 (Estonian)
HGVS:: NC_000003.12:g.45943458T>C, NC_000003.11:g.45984950T>C, NG_031955.1:g.57367A>G

Select item 14901339505.

rs1490133950 [Homo sapiens]

Variant type:: SNV
Alleles:: A>C [Show Flanks]
Chromosome:: 3:45941509 (GRCh38)
3:45983001 (GRCh37)
Canonical SPDI:: NC_000003.12:45941508:A:C
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: intron_variant,upstream_transcript_variant,genic_downstream_transcript_variant,genic_upstream_transcript_variant
Validated:: by frequency,by alfa
MAF:: C=0./0 (ALFA)
C=0.000004/1 (TOPMED)
HGVS:: NC_000003.12:g.45941509A>C, NC_000003.11:g.45983001A>C, NG_031955.1:g.59316T>G

Select item 14886227476.

rs1488622747 [Homo sapiens]

Variant type:: SNV
Alleles:: C>G [Show Flanks]
Chromosome:: 3:45940849 (GRCh38)
3:45982341 (GRCh37)
Canonical SPDI:: NC_000003.12:45940848:C:G
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: intron_variant,upstream_transcript_variant,genic_downstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa
MAF:: G=0.0016/7 (ALFA)
G=0.0016/7 (Estonian)
HGVS:: NC_000003.12:g.45940849C>G, NC_000003.11:g.45982341C>G, NG_031955.1:g.59976G>C

Select item 14873499747.

rs1487349974 [Homo sapiens]

Variant type:: SNV
Alleles:: G>T [Show Flanks]
Chromosome:: 3:45946779 (GRCh38)
3:45988271 (GRCh37)
Canonical SPDI:: NC_000003.12:45946778:G:T
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: coding_sequence_variant,missense_variant,intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.000004/1 (TOPMED)
T=0.000007/1 (GnomAD)
HGVS:: NC_000003.12:g.45946779G>T, NC_000003.11:g.45988271G>T, NG_031955.1:g.54046C>A, NM_006564.2:c.298G>T, NM_006564.1:c.298G>T, NM_001386436.1:c.298G>T, NM_001386437.1:c.298G>T, NM_001386435.1:c.298G>T, NP_006555.1:p.Val100Phe, NP_001373365.1:p.Val100Phe, NP_001373366.1:p.Val100Phe, NP_001373364.1:p.Val100Phe

Select item 14873124678.

rs1487312467 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 3:45947653 (GRCh38)
3:45989145 (GRCh37)
Canonical SPDI:: NC_000003.12:45947652:T:C
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,intron_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa
MAF:: C=0./0 (ALFA)
C=0.000004/1 (TOPMED)
HGVS:: NC_000003.12:g.45947653T>C, NC_000003.11:g.45989145T>C, NG_031955.1:g.53172A>G, NM_006564.2:c.*143T>C, NM_006564.1:c.*143T>C, NM_001386436.1:c.*143T>C, NM_001386437.1:c.*143T>C, NM_001386435.1:c.*143T>C

Select item 14865055999.

rs1486505599 [Homo sapiens]

Variant type:: SNV
Alleles:: G>T [Show Flanks]
Chromosome:: 3:45943623 (GRCh38)
3:45985115 (GRCh37)
Canonical SPDI:: NC_000003.12:45943622:G:T
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: intron_variant,upstream_transcript_variant,genic_downstream_transcript_variant,genic_upstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.000004/1 (TOPMED)
T=0.000007/1 (GnomAD)
HGVS:: NC_000003.12:g.45943623G>T, NC_000003.11:g.45985115G>T, NG_031955.1:g.57202C>A

Select item 148607380510.

rs1486073805 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 3:45943451 (GRCh38)
3:45984943 (GRCh37)
Canonical SPDI:: NC_000003.12:45943450:G:A
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: intron_variant,upstream_transcript_variant,genic_downstream_transcript_variant,genic_upstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000014/2 (GnomAD)
A=0.00003/8 (TOPMED)
HGVS:: NC_000003.12:g.45943451G>A, NC_000003.11:g.45984943G>A, NG_031955.1:g.57374C>T

Select item 148600173211.

rs1486001732 [Homo sapiens]

Variant type:: SNV
Alleles:: A>G [Show Flanks]
Chromosome:: 3:45948398 (GRCh38)
3:45989890 (GRCh37)
Canonical SPDI:: NC_000003.12:45948397:A:G
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,intron_variant,downstream_transcript_variant,500B_downstream_variant
Validated:: by frequency,by alfa
MAF:: G=0./0 (ALFA)
G=0.000004/1 (TOPMED)
HGVS:: NC_000003.12:g.45948398A>G, NC_000003.11:g.45989890A>G, NG_031955.1:g.52427T>C

Select item 148432103612.

rs1484321036 [Homo sapiens]

Variant type:: SNV
Alleles:: G>C [Show Flanks]
Chromosome:: 3:45944182 (GRCh38)
3:45985674 (GRCh37)
Canonical SPDI:: NC_000003.12:45944181:G:C
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: intron_variant,upstream_transcript_variant,genic_downstream_transcript_variant,genic_upstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0.000071/1 (ALFA)
C=0.000045/12 (TOPMED)
C=0.000059/8 (GnomAD)
HGVS:: NC_000003.12:g.45944182G>C, NC_000003.11:g.45985674G>C, NG_031955.1:g.56643C>G

Select item 148422159913.

rs1484221599 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 3:45942024 (GRCh38)
3:45983516 (GRCh37)
Canonical SPDI:: NC_000003.12:45942023:T:C
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: intron_variant,upstream_transcript_variant,genic_downstream_transcript_variant,genic_upstream_transcript_variant
Validated:: by frequency,by alfa
MAF:: C=0./0 (ALFA)
HGVS:: NC_000003.12:g.45942024T>C, NC_000003.11:g.45983516T>C, NG_031955.1:g.58801A>G

Select item 148283724214.

rs1482837242 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 3:45948824 (GRCh38)
3:45990316 (GRCh37)
Canonical SPDI:: NC_000003.12:45948823:T:C
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,intron_variant,downstream_transcript_variant,500B_downstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0./0 (ALFA)
C=0.000011/3 (TOPMED)
C=0.000021/3 (GnomAD)
HGVS:: NC_000003.12:g.45948824T>C, NC_000003.11:g.45990316T>C, NG_031955.1:g.52001A>G

Select item 148231668615.

rs1482316686 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A,T [Show Flanks]
Chromosome:: 3:45938772 (GRCh38)
3:45980264 (GRCh37)
Canonical SPDI:: NC_000003.12:45938771:G:A,NC_000003.12:45938771:G:T
Gene:: FYCO1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000019/5 (TOPMED)
T=0.000035/1 (TOMMO)
A=0.000043/6 (GnomAD)
HGVS:: NC_000003.12:g.45938772G>A, NC_000003.12:g.45938772G>T, NC_000003.11:g.45980264G>A, NC_000003.11:g.45980264G>T, NG_031955.1:g.62053C>T, NG_031955.1:g.62053C>A, NG_082992.1:g.1328G>A, NG_082992.1:g.1328G>T

Select item 148206292716.

rs1482062927 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 3:45943786 (GRCh38)
3:45985278 (GRCh37)
Canonical SPDI:: NC_000003.12:45943785:C:T
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,upstream_transcript_variant,intron_variant,genic_upstream_transcript_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
T=0.000014/2 (GnomAD)
HGVS:: NC_000003.12:g.45943786C>T, NC_000003.11:g.45985278C>T, NG_031955.1:g.57039G>A

Select item 148125796217.

rs1481257962 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 3:45947398 (GRCh38)
3:45988890 (GRCh37)
Canonical SPDI:: NC_000003.12:45947397:T:C
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: missense_variant,genic_downstream_transcript_variant,coding_sequence_variant,intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0./0 (ALFA)
C=0.000004/1 (GnomAD_exomes)
C=0.000007/1 (GnomAD)
C=0.000008/2 (TOPMED)
HGVS:: NC_000003.12:g.45947398T>C, NC_000003.11:g.45988890T>C, NG_031955.1:g.53427A>G, NM_006564.2:c.917T>C, NM_006564.1:c.917T>C, NM_001386436.1:c.917T>C, NM_001386437.1:c.917T>C, NM_001386435.1:c.917T>C, NP_006555.1:p.Ile306Thr, NP_001373365.1:p.Ile306Thr, NP_001373366.1:p.Ile306Thr, NP_001373364.1:p.Ile306Thr

Select item 148115334618.

rs1481153346 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 3:45944600 (GRCh38)
3:45986092 (GRCh37)
Canonical SPDI:: NC_000003.12:45944599:G:A
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,upstream_transcript_variant,intron_variant,genic_upstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0.000142/2 (ALFA)
A=0.000035/1 (TOMMO)
A=0.000049/13 (TOPMED)
A=0.0001/14 (GnomAD)
A=0.000342/1 (KOREAN)
A=0.000546/1 (Korea1K)
HGVS:: NC_000003.12:g.45944600G>A, NC_000003.11:g.45986092G>A, NG_031955.1:g.56225C>T

Select item 148096744819.

rs1480967448 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 3:45946786 (GRCh38)
3:45988278 (GRCh37)
Canonical SPDI:: NC_000003.12:45946785:G:A
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: missense_variant,genic_downstream_transcript_variant,coding_sequence_variant,intron_variant
HGVS:: NC_000003.12:g.45946786G>A, NC_000003.11:g.45988278G>A, NG_031955.1:g.54039C>T, NM_006564.2:c.305G>A, NM_006564.1:c.305G>A, NM_001386436.1:c.305G>A, NM_001386437.1:c.305G>A, NM_001386435.1:c.305G>A, NP_006555.1:p.Cys102Tyr, NP_001373365.1:p.Cys102Tyr, NP_001373366.1:p.Cys102Tyr, NP_001373364.1:p.Cys102Tyr

Select item 148080870320.

rs1480808703 [Homo sapiens]

Variant type:: SNV
Alleles:: A>T [Show Flanks]
Chromosome:: 3:45939370 (GRCh38)
3:45980862 (GRCh37)
Canonical SPDI:: NC_000003.12:45939369:A:T
Gene:: CXCR6 (Varview), FYCO1 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,upstream_transcript_variant,2KB_upstream_variant,intron_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
T=0.000007/1 (GnomAD)
HGVS:: NC_000003.12:g.45939370A>T, NC_000003.11:g.45980862A>T, NG_031955.1:g.61455T>A

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