SNP Links for Gene (Select 151009) - SNP

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Select item 14910339581.

rs1491033958 has merged into rs71267468 [Homo sapiens]

Variant type:: DELINS
Alleles:: CACACACACACACACA>-,CA,CACA,CACACA,CACACACA,CACACACACA,CACACACACACA,CACACACACACACA,CACACACACACACACACA [Show Flanks]
Chromosome:: 2:110378987 (GRCh38)
2:111136564 (GRCh37)
Canonical SPDI:: NC_000002.12:110378975:ACACACACACACACACACACACACACA:ACACACACACA,NC_000002.12:110378975:ACACACACACACACACACACACACACA:ACACACACACACA,NC_000002.12:110378975:ACACACACACACACACACACACACACA:ACACACACACACACA,NC_000002.12:110378975:ACACACACACACACACACACACACACA:ACACACACACACACACA,NC_000002.12:110378975:ACACACACACACACACACACACACACA:ACACACACACACACACACA,NC_000002.12:110378975:ACACACACACACACACACACACACACA:ACACACACACACACACACACA,NC_000002.12:110378975:ACACACACACACACACACACACACACA:ACACACACACACACACACACACA,NC_000002.12:110378975:ACACACACACACACACACACACACACA:ACACACACACACACACACACACACA,NC_000002.12:110378975:ACACACACACACACACACACACACACA:ACACACACACACACACACACACACACACA
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: ACACACACACACA=0./0 (ALFA)
HGVS:: NC_000002.12:g.110378977CA[5], NC_000002.12:g.110378977CA[6], NC_000002.12:g.110378977CA[7], NC_000002.12:g.110378977CA[8], NC_000002.12:g.110378977CA[9], NC_000002.12:g.110378977CA[10], NC_000002.12:g.110378977CA[11], NC_000002.12:g.110378977CA[12], NC_000002.12:g.110378977CA[14], NC_000002.11:g.111136554CA[5], NC_000002.11:g.111136554CA[6], NC_000002.11:g.111136554CA[7], NC_000002.11:g.111136554CA[8], NC_000002.11:g.111136554CA[9], NC_000002.11:g.111136554CA[10], NC_000002.11:g.111136554CA[11], NC_000002.11:g.111136554CA[12], NC_000002.11:g.111136554CA[14], XM_017003105.3:c.*8285GT[5], XM_017003105.3:c.*8285GT[6], XM_017003105.3:c.*8285GT[7], XM_017003105.3:c.*8285GT[8], XM_017003105.3:c.*8285GT[9], XM_017003105.3:c.*8285GT[10], XM_017003105.3:c.*8285GT[11], XM_017003105.3:c.*8285GT[12], XM_017003105.3:c.*8285GT[14]

Select item 14909139412.

rs1490913941 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 2:110382967 (GRCh38)
2:111140544 (GRCh37)
Canonical SPDI:: NC_000002.12:110382966:C:T
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
HGVS:: NC_000002.12:g.110382967C>T, NC_000002.11:g.111140544C>T, NG_021578.4:g.25C>T, XM_017003105.3:c.*4319G>A

Select item 14904657123.

rs1490465712 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 2:110382022 (GRCh38)
2:111139599 (GRCh37)
Canonical SPDI:: NC_000002.12:110382021:G:A
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.00014/2 (TOMMO)
HGVS:: NC_000002.12:g.110382022G>A, NC_000002.11:g.111139599G>A, XM_017003105.3:c.*5264C>T

Select item 14903469344.

rs1490346934 [Homo sapiens]

Variant type:: SNV
Alleles:: T>G [Show Flanks]
Chromosome:: 2:110385382 (GRCh38)
2:111142959 (GRCh37)
Canonical SPDI:: NC_000002.12:110385381:T:G
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: upstream_transcript_variant,genic_downstream_transcript_variant,2KB_upstream_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa
MAF:: G=0.0002/1 (ALFA)
HGVS:: NC_000002.12:g.110385382T>G, NC_000002.11:g.111142959T>G, XM_017003105.3:c.*1904A>C

Select item 14903014835.

rs1490301483 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 2:110379421 (GRCh38)
2:111136998 (GRCh37)
Canonical SPDI:: NC_000002.12:110379420:T:C
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa
MAF:: C=0./0 (ALFA)
HGVS:: NC_000002.12:g.110379421T>C, NC_000002.11:g.111136998T>C, XM_017003105.3:c.*7865A>G

Select item 14898571056.

rs1489857105 [Homo sapiens]

Variant type:: SNV
Alleles:: T>A [Show Flanks]
Chromosome:: 2:110382110 (GRCh38)
2:111139687 (GRCh37)
Canonical SPDI:: NC_000002.12:110382109:T:A
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.00923/148 (TOMMO)
A=0.0248/637 (GnomAD)
T=0.5/2 (SGDP_PRJ)
HGVS:: NC_000002.12:g.110382110T>A, NC_000002.11:g.111139687T>A, XM_017003105.3:c.*5176A>T

Select item 14889378597.

rs1488937859 [Homo sapiens]

Variant type:: SNV
Alleles:: A>C,G [Show Flanks]
Chromosome:: 2:110379090 (GRCh38)
2:111136667 (GRCh37)
Canonical SPDI:: NC_000002.12:110379089:A:C,NC_000002.12:110379089:A:G
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0.001056/16 (ALFA)
G=0.000004/1 (TOPMED)
HGVS:: NC_000002.12:g.110379090A>C, NC_000002.12:g.110379090A>G, NC_000002.11:g.111136667A>C, NC_000002.11:g.111136667A>G, XM_017003105.3:c.*8196T>G, XM_017003105.3:c.*8196T>C

Select item 14888642438.

rs1488864243 [Homo sapiens]

Variant type:: DELINS
Alleles:: C>- [Show Flanks]
Chromosome:: 2:110385922 (GRCh38)
2:111143499 (GRCh37)
Canonical SPDI:: NC_000002.12:110385921:CCC:CC
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: upstream_transcript_variant,genic_downstream_transcript_variant,2KB_upstream_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: CC=0.00017/2 (ALFA)
-=0.00072/36 (GnomAD)
HGVS:: NC_000002.12:g.110385924del, NC_000002.11:g.111143501del, XM_017003105.3:c.*1364del

Select item 14888150329.

rs1488815032 [Homo sapiens]

Variant type:: SNV
Alleles:: A>G [Show Flanks]
Chromosome:: 2:110379101 (GRCh38)
2:111136678 (GRCh37)
Canonical SPDI:: NC_000002.12:110379100:A:G
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa
MAF:: G=0./0 (ALFA)
G=0.000004/1 (TOPMED)
HGVS:: NC_000002.12:g.110379101A>G, NC_000002.11:g.111136678A>G, XM_017003105.3:c.*8185T>C

Select item 148790025910.

rs1487900259 [Homo sapiens]

Variant type:: SNV
Alleles:: A>G [Show Flanks]
Chromosome:: 2:110382479 (GRCh38)
2:111140056 (GRCh37)
Canonical SPDI:: NC_000002.12:110382478:A:G
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: G=0.00025/3 (ALFA)
G=0.00031/2 (1000Genomes)
G=0.00073/16 (GnomAD)
HGVS:: NC_000002.12:g.110382479A>G, NC_000002.11:g.111140056A>G, XM_017003105.3:c.*4807T>C

Select item 148772877111.

rs1487728771 [Homo sapiens]

Variant type:: DEL
Alleles:: AT>- [Show Flanks]
Chromosome:: 2:110382153 (GRCh38)
2:111139730 (GRCh37)
Canonical SPDI:: NC_000002.12:110382152:AT:
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: -=0.00008/1 (ALFA)
-=0.00108/45 (GnomAD)
HGVS:: NC_000002.12:g.110382153_110382154del, NC_000002.11:g.111139730_111139731del, XM_017003105.3:c.*5132_*5133del

Select item 148748249512.

rs1487482495 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 2:110386076 (GRCh38)
2:111143653 (GRCh37)
Canonical SPDI:: NC_000002.12:110386075:T:C
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: upstream_transcript_variant,genic_downstream_transcript_variant,2KB_upstream_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0./0 (ALFA)
C=0.000008/2 (TOPMED)
C=0.000036/1 (TOMMO)
HGVS:: NC_000002.12:g.110386076T>C, NC_000002.11:g.111143653T>C, XM_017003105.3:c.*1210A>G

Select item 148745250913.

rs1487452509 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A,C [Show Flanks]
Chromosome:: 2:110385380 (GRCh38)
2:111142957 (GRCh37)
Canonical SPDI:: NC_000002.12:110385379:G:A,NC_000002.12:110385379:G:C
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: upstream_transcript_variant,genic_downstream_transcript_variant,2KB_upstream_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa
MAF:: C=0./0 (ALFA)
C=0.000004/1 (TOPMED)
HGVS:: NC_000002.12:g.110385380G>A, NC_000002.12:g.110385380G>C, NC_000002.11:g.111142957G>A, NC_000002.11:g.111142957G>C, XM_017003105.3:c.*1906C>T, XM_017003105.3:c.*1906C>G

Select item 148698045914.

rs1486980459 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 2:110374898 (GRCh38)
2:111132475 (GRCh37)
Canonical SPDI:: NC_000002.12:110374897:T:C
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: 500B_downstream_variant,downstream_transcript_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa
MAF:: C=0.00017/2 (ALFA)
HGVS:: NC_000002.12:g.110374898T>C, NC_000002.11:g.111132475T>C, XM_017003105.3:c.*12388A>G

Select item 148695018115.

rs1486950181 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 2:110375731 (GRCh38)
2:111133308 (GRCh37)
Canonical SPDI:: NC_000002.12:110375730:T:C
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,3_prime_UTR_variant,non_coding_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0.0247/293 (ALFA)
C=0.00118/2 (GnomAD)
C=0.05452/140 (KOREAN)
HGVS:: NC_000002.12:g.110375731T>C, NC_000002.11:g.111133308T>C, XM_017003105.3:c.*11555A>G, NR_027244.1:n.1560A>G

Select item 148694156816.

rs1486941568 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A,T [Show Flanks]
Chromosome:: 2:110377189 (GRCh38)
2:111134766 (GRCh37)
Canonical SPDI:: NC_000002.12:110377188:G:A,NC_000002.12:110377188:G:T
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.000016/2 (GnomAD)
A=0.000036/1 (TOMMO)
HGVS:: NC_000002.12:g.110377189G>A, NC_000002.12:g.110377189G>T, NC_000002.11:g.111134766G>A, NC_000002.11:g.111134766G>T, XM_017003105.3:c.*10097C>T, XM_017003105.3:c.*10097C>A

Select item 148692995417.

rs1486929954 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 2:110376541 (GRCh38)
2:111134118 (GRCh37)
Canonical SPDI:: NC_000002.12:110376540:C:T
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,3_prime_UTR_variant,non_coding_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.00005/1 (GnomAD)
T=0.00016/1 (1000Genomes)
HGVS:: NC_000002.12:g.110376541C>T, NC_000002.11:g.111134118C>T, XM_017003105.3:c.*10745G>A, NR_027244.1:n.750G>A

Select item 148685406718.

rs1486854067 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 2:110376015 (GRCh38)
2:111133592 (GRCh37)
Canonical SPDI:: NC_000002.12:110376014:G:A
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,3_prime_UTR_variant,non_coding_transcript_variant
Validated:: by frequency,by alfa
MAF:: A=0./0 (ALFA)
HGVS:: NC_000002.12:g.110376015G>A, NC_000002.11:g.111133592G>A, XM_017003105.3:c.*11271C>T, NR_027244.1:n.1276C>T

Select item 148595766219.

rs1485957662 [Homo sapiens]

Variant type:: SNV
Alleles:: C>G [Show Flanks]
Chromosome:: 2:110384878 (GRCh38)
2:111142455 (GRCh37)
Canonical SPDI:: NC_000002.12:110384877:C:G
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: upstream_transcript_variant,genic_downstream_transcript_variant,2KB_upstream_variant,3_prime_UTR_variant
Validated:: by frequency,by alfa
MAF:: G=0./0 (ALFA)
G=0.00006/2 (GnomAD)
HGVS:: NC_000002.12:g.110384878C>G, NC_000002.11:g.111142455C>G, NG_021578.4:g.1936C>G, XM_017003105.3:c.*2408G>C

Select item 148575809320.

rs1485758093 [Homo sapiens]

Variant type:: SNV
Alleles:: G>C [Show Flanks]
Chromosome:: 2:110375254 (GRCh38)
2:111132831 (GRCh37)
Canonical SPDI:: NC_000002.12:110375253:G:C
Gene:: LINC01106 (Varview), LIMS4 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,3_prime_UTR_variant,non_coding_transcript_variant
Validated:: by frequency,by alfa
MAF:: C=0./0 (ALFA)
HGVS:: NC_000002.12:g.110375254G>C, NC_000002.11:g.111132831G>C, XM_017003105.3:c.*12032C>G, NR_027244.1:n.2037C>G

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