SNP Links for Gene (Select 26046) - SNP

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Select item 14915537191.

rs1491553719 [Homo sapiens]

Variant type:: INS
Alleles:: ->T [Show Flanks]
Chromosome:: 21:28947626 (GRCh38)
21:30319949 (GRCh37)
Canonical SPDI:: NC_000021.9:28947626::T
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by cluster
MAF:: T=0.000007/1 (GnomAD)
HGVS:: NC_000021.9:g.28947626_28947627insT, NC_000021.8:g.30319948_30319949insT, NW_025791813.1:g.38360_38361insT

Select item 14915107842.

rs1491510784 [Homo sapiens]

Variant type:: DELINS
Alleles:: TT>- [Show Flanks]
Chromosome:: 21:28931101 (GRCh38)
21:30303423 (GRCh37)
Canonical SPDI:: NC_000021.9:28931099:TTT:T
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
-=0.000015/4 (TOPMED)
-=0.00003/4 (GnomAD)
HGVS:: NC_000021.9:g.28931101_28931102del, NC_000021.8:g.30303423_30303424del, NW_025791813.1:g.21835_21836del

Select item 14912611673.

rs1491261167 has merged into rs369698319 [Homo sapiens]

Variant type:: DELINS
Alleles:: TTTTT>-,T,TT,TTT,TTTT,TTTTTT,TTTTTTT,TTTTTTTT,TTTTTTTTTT,TTTTTTTTTTTT [Show Flanks]
Chromosome:: 21:28933689 (GRCh38)
21:30306011 (GRCh37)
Canonical SPDI:: NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTT,NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTTT,NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTTTT,NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTTTTT,NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTT,NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTT,NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTT,NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTT,NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTT,NC_000021.9:28933677:TTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTT
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: TTTTTTTTTTTTT=0./0 (ALFA)
TTT=0.000004/1 (TOPMED)
-=0.229233/1148 (1000Genomes)
HGVS:: NC_000021.9:g.28933689_28933693del, NC_000021.9:g.28933690_28933693del, NC_000021.9:g.28933691_28933693del, NC_000021.9:g.28933692_28933693del, NC_000021.9:g.28933693del, NC_000021.9:g.28933693dup, NC_000021.9:g.28933692_28933693dup, NC_000021.9:g.28933691_28933693dup, NC_000021.9:g.28933689_28933693dup, NC_000021.9:g.28933687_28933693dup, NC_000021.8:g.30306011_30306015del, NC_000021.8:g.30306012_30306015del, NC_000021.8:g.30306013_30306015del, NC_000021.8:g.30306014_30306015del, NC_000021.8:g.30306015del, NC_000021.8:g.30306015dup, NC_000021.8:g.30306014_30306015dup, NC_000021.8:g.30306013_30306015dup, NC_000021.8:g.30306011_30306015dup, NC_000021.8:g.30306009_30306015dup, NW_025791813.1:g.24423_24427del, NW_025791813.1:g.24424_24427del, NW_025791813.1:g.24425_24427del, NW_025791813.1:g.24426_24427del, NW_025791813.1:g.24427del, NW_025791813.1:g.24427dup, NW_025791813.1:g.24426_24427dup, NW_025791813.1:g.24425_24427dup, NW_025791813.1:g.24423_24427dup, NW_025791813.1:g.24421_24427dup

Select item 14912520094.

rs1491252009 [Homo sapiens]

Variant type:: DEL
Alleles:: CA>- [Show Flanks]
Chromosome:: 21:28955922 (GRCh38)
21:30328244 (GRCh37)
Canonical SPDI:: NC_000021.9:28955921:CA:
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa
MAF:: -=0.00641/76 (ALFA)
-=0.00172/48 (TOMMO)
HGVS:: NC_000021.9:g.28955922_28955923del, NC_000021.8:g.30328244_30328245del, NW_025791813.1:g.46656_46657del

Select item 14912228045.

rs1491222804 [Homo sapiens]

Variant type:: INS
Alleles:: ->C,CC,CTC,CTCC [Show Flanks]
Chromosome:: 21:28933678 (GRCh38)
21:30306001 (GRCh37)
Canonical SPDI:: NC_000021.9:28933678::C,NC_000021.9:28933678::CC,NC_000021.9:28933678::CTC,NC_000021.9:28933678::CTCC
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: CC=0./0 (ALFA)
C=0.00004/1 (TOMMO)
HGVS:: NC_000021.9:g.28933678_28933679insC, NC_000021.9:g.28933678_28933679insCC, NC_000021.9:g.28933678_28933679insCTC, NC_000021.9:g.28933678_28933679insCTCC, NC_000021.8:g.30306000_30306001insC, NC_000021.8:g.30306000_30306001insCC, NC_000021.8:g.30306000_30306001insCTC, NC_000021.8:g.30306000_30306001insCTCC, NW_025791813.1:g.24412_24413insC, NW_025791813.1:g.24412_24413insCC, NW_025791813.1:g.24412_24413insCTC, NW_025791813.1:g.24412_24413insCTCC

Select item 14911339926.

rs1491133992 [Homo sapiens]

Variant type:: DELINS
Alleles:: GT>- [Show Flanks]
Chromosome:: 21:28943983 (GRCh38)
21:30316305 (GRCh37)
Canonical SPDI:: NC_000021.9:28943981:TGT:T
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by cluster
HGVS:: NC_000021.9:g.28943983_28943984del, NC_000021.8:g.30316305_30316306del, NW_025791813.1:g.34717_34718del

Select item 14910915987.

rs1491091598 [Homo sapiens]

Variant type:: DELINS
Alleles:: ->T [Show Flanks]
Chromosome:: 21:28931067 (GRCh38)
21:30303390 (GRCh37)
Canonical SPDI:: NC_000021.9:28931067:T:TT
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: TT=0./0 (ALFA)
T=0.000011/3 (TOPMED)
T=0.000048/2 (GnomAD)
HGVS:: NC_000021.9:g.28931068dup, NC_000021.8:g.30303390dup, NW_025791813.1:g.21802dup

Select item 14910617338.

rs1491061733 has merged into rs34339110 [Homo sapiens]

Variant type:: DELINS
Alleles:: AAA>-,A,AA,AAAA,AAAAA,AAAAAA [Show Flanks]
Chromosome:: 21:28988480 (GRCh38)
21:30360801 (GRCh37)
Canonical SPDI:: NC_000021.9:28988466:AAAAAAAAAAAAAAAA:AAAAAAAAAAAAA,NC_000021.9:28988466:AAAAAAAAAAAAAAAA:AAAAAAAAAAAAAA,NC_000021.9:28988466:AAAAAAAAAAAAAAAA:AAAAAAAAAAAAAAA,NC_000021.9:28988466:AAAAAAAAAAAAAAAA:AAAAAAAAAAAAAAAAA,NC_000021.9:28988466:AAAAAAAAAAAAAAAA:AAAAAAAAAAAAAAAAAA,NC_000021.9:28988466:AAAAAAAAAAAAAAAA:AAAAAAAAAAAAAAAAAAA
Gene:: LTN1 (Varview)
Functional Consequence:: genic_upstream_transcript_variant,intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: AAAAAAAAAAAAAAAAAA=0./0 (ALFA)
HGVS:: NC_000021.9:g.28988480_28988482del, NC_000021.9:g.28988481_28988482del, NC_000021.9:g.28988482del, NC_000021.9:g.28988482dup, NC_000021.9:g.28988481_28988482dup, NC_000021.9:g.28988480_28988482dup, NC_000021.8:g.30360801_30360803del, NC_000021.8:g.30360802_30360803del, NC_000021.8:g.30360803del, NC_000021.8:g.30360803dup, NC_000021.8:g.30360802_30360803dup, NC_000021.8:g.30360801_30360803dup, NW_025791813.1:g.79214_79216del, NW_025791813.1:g.79215_79216del, NW_025791813.1:g.79216del, NW_025791813.1:g.79216dup, NW_025791813.1:g.79215_79216dup, NW_025791813.1:g.79214_79216dup

Select item 14909538389.

rs1490953838 [Homo sapiens]

Variant type:: SNV
Alleles:: A>C,G [Show Flanks]
Chromosome:: 21:28980908 (GRCh38)
21:30353230 (GRCh37)
Canonical SPDI:: NC_000021.9:28980907:A:C,NC_000021.9:28980907:A:G
Gene:: LTN1 (Varview)
Functional Consequence:: genic_upstream_transcript_variant,intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: G=0./0 (ALFA)
G=0.000021/3 (GnomAD)
HGVS:: NC_000021.9:g.28980908A>C, NC_000021.9:g.28980908A>G, NC_000021.8:g.30353230A>C, NC_000021.8:g.30353230A>G, NW_025791813.1:g.71642A>C, NW_025791813.1:g.71642A>G

Select item 149095199910.

rs1490951999 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 21:28947787 (GRCh38)
21:30320109 (GRCh37)
Canonical SPDI:: NC_000021.9:28947786:C:T
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
HGVS:: NC_000021.9:g.28947787C>T, NC_000021.8:g.30320109C>T, NW_025791813.1:g.38521C>T

Select item 149091007811.

rs1490910078 [Homo sapiens]

Variant type:: SNV
Alleles:: A>T [Show Flanks]
Chromosome:: 21:28964019 (GRCh38)
21:30336341 (GRCh37)
Canonical SPDI:: NC_000021.9:28964018:A:T
Gene:: LTN1 (Varview)
Functional Consequence:: 5_prime_UTR_variant,intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.000007/1 (GnomAD)
T=0.000023/6 (TOPMED)
HGVS:: NC_000021.9:g.28964019A>T, NC_000021.8:g.30336341A>T, NW_025791813.1:g.54753A>T, XM_047440742.1:c.-3296T>A

Select item 149084377612.

rs1490843776 [Homo sapiens]

Variant type:: SNV
Alleles:: C>A,T [Show Flanks]
Chromosome:: 21:28962857 (GRCh38)
21:30335179 (GRCh37)
Canonical SPDI:: NC_000021.9:28962856:C:A,NC_000021.9:28962856:C:T
Gene:: LTN1 (Varview)
Functional Consequence:: 5_prime_UTR_variant,intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
HGVS:: NC_000021.9:g.28962857C>A, NC_000021.9:g.28962857C>T, NC_000021.8:g.30335179C>A, NC_000021.8:g.30335179C>T, NW_025791813.1:g.53591C>A, NW_025791813.1:g.53591C>T, XM_047440742.1:c.-2134G>T, XM_047440742.1:c.-2134G>A

Select item 149080990313.

rs1490809903 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 21:28929873 (GRCh38)
21:30302195 (GRCh37)
Canonical SPDI:: NC_000021.9:28929872:C:T
Gene:: LTN1 (Varview)
Functional Consequence:: 3_prime_UTR_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
T=0.000011/3 (TOPMED)
HGVS:: NC_000021.9:g.28929873C>T, NC_000021.8:g.30302195C>T, NW_025791813.1:g.20607C>T, NM_015565.3:c.*575G>A, NM_015565.2:c.*575G>A, NM_001320766.2:c.*575G>A, NM_001320766.1:c.*575G>A, XM_017028317.2:c.*575G>A, XM_017028317.1:c.*575G>A, XM_047440740.1:c.*575G>A, XM_047440742.1:c.*575G>A, XM_047440741.1:c.*575G>A

Select item 149067750014.

rs1490677500 has merged into rs1555848864 [Homo sapiens]

Variant type:: DELINS
Alleles:: A>-,AA,AAA,AAAA,AAAAAAAAAA [Show Flanks]
Chromosome:: 21:28988158 (GRCh38)
21:30360479 (GRCh37)
Canonical SPDI:: NC_000021.9:28988157:AA:A,NC_000021.9:28988157:AA:AAA,NC_000021.9:28988157:AA:AAAA,NC_000021.9:28988157:AA:AAAAA,NC_000021.9:28988157:AA:AAAAAAAAAAA
Gene:: LTN1 (Varview)
Functional Consequence:: genic_upstream_transcript_variant,intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: AAA=0.01273/151 (ALFA)
HGVS:: NC_000021.9:g.28988159del, NC_000021.9:g.28988159dup, NC_000021.9:g.28988158_28988159dup, NC_000021.9:g.28988159_28988160insAAA, NC_000021.9:g.28988159_28988160insAAAAAAAAA, NC_000021.8:g.30360480del, NC_000021.8:g.30360480dup, NC_000021.8:g.30360479_30360480dup, NC_000021.8:g.30360480_30360481insAAA, NC_000021.8:g.30360480_30360481insAAAAAAAAA, NW_025791813.1:g.78893del, NW_025791813.1:g.78893dup, NW_025791813.1:g.78892_78893dup, NW_025791813.1:g.78893_78894insAAA, NW_025791813.1:g.78893_78894insAAAAAAAAA

Select item 149065679015.

rs1490656790 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 21:28967811 (GRCh38)
21:30340133 (GRCh37)
Canonical SPDI:: NC_000021.9:28967810:T:C
Gene:: LTN1 (Varview)
Functional Consequence:: genic_upstream_transcript_variant,upstream_transcript_variant,intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0.001242/23 (ALFA)
C=0.000008/2 (TOPMED)
C=0.000136/19 (GnomAD)
C=0.005134/23 (Estonian)
T=0.5/1 (SGDP_PRJ)
HGVS:: NC_000021.9:g.28967811T>C, NC_000021.8:g.30340133T>C, NW_025791813.1:g.58545T>C

Select item 149058545316.

rs1490585453 [Homo sapiens]

Variant type:: SNV
Alleles:: A>C [Show Flanks]
Chromosome:: 21:28954158 (GRCh38)
21:30326480 (GRCh37)
Canonical SPDI:: NC_000021.9:28954157:A:C
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0./0 (ALFA)
C=0.000004/1 (TOPMED)
C=0.000007/1 (GnomAD)
HGVS:: NC_000021.9:g.28954158A>C, NC_000021.8:g.30326480A>C, NW_025791813.1:g.44892A>C

Select item 149057350317.

rs1490573503 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 21:28937234 (GRCh38)
21:30309556 (GRCh37)
Canonical SPDI:: NC_000021.9:28937233:C:T
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
T=0.000004/1 (TOPMED)
HGVS:: NC_000021.9:g.28937234C>T, NC_000021.8:g.30309556C>T, NW_025791813.1:g.27968C>T

Select item 149055175718.

rs1490551757 [Homo sapiens]

Variant type:: SNV
Alleles:: A>G [Show Flanks]
Chromosome:: 21:28984917 (GRCh38)
21:30357238 (GRCh37)
Canonical SPDI:: NC_000021.9:28984916:A:G
Gene:: LTN1 (Varview)
Functional Consequence:: synonymous_variant,genic_upstream_transcript_variant,coding_sequence_variant
Validated:: by frequency,by alfa,by cluster
MAF:: G=0./0 (ALFA)
G=0.000007/1 (GnomAD)
HGVS:: NC_000021.9:g.28984917A>G, NC_000021.8:g.30357238A>G, NW_025791813.1:g.75651A>G, NM_015565.3:c.351T>C, NM_015565.2:c.489T>C, NM_001320766.2:c.351T>C, NM_001320766.1:c.489T>C

Select item 149045771919.

rs1490457719 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A,T [Show Flanks]
Chromosome:: 21:28948290 (GRCh38)
21:30320612 (GRCh37)
Canonical SPDI:: NC_000021.9:28948289:G:A,NC_000021.9:28948289:G:T
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa
MAF:: A=0./0 (ALFA)
T=0.00205/58 (TOMMO)
HGVS:: NC_000021.9:g.28948290G>A, NC_000021.9:g.28948290G>T, NC_000021.8:g.30320612G>A, NC_000021.8:g.30320612G>T, NW_025791813.1:g.39024G>A, NW_025791813.1:g.39024G>T

Select item 149043325920.

rs1490433259 [Homo sapiens]

Variant type:: SNV
Alleles:: A>T [Show Flanks]
Chromosome:: 21:28946345 (GRCh38)
21:30318667 (GRCh37)
Canonical SPDI:: NC_000021.9:28946344:A:T
Gene:: LTN1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0.000671/3 (ALFA)
T=0.000014/2 (GnomAD)
T=0.000893/4 (Estonian)
HGVS:: NC_000021.9:g.28946345A>T, NC_000021.8:g.30318667A>T, NW_025791813.1:g.37079A>T

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