SNP Links for Gene (Select 27076) - SNP

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Select item 14914538971.

rs1491453897 has merged into rs139452624 [Homo sapiens]

Variant type:: DELINS
Alleles:: CT>- [Show Flanks]
Chromosome:: 19:43464934 (GRCh38)
19:43969086 (GRCh37)
Canonical SPDI:: NC_000019.10:43464932:TCT:T
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0.288569/3423 (ALFA)
-=0.223022/124 (NorthernSweden)
TC=0.343051/1718 (1000Genomes)
-=0.356546/41698 (GnomAD)
TC=0.489697/7475 (TOMMO)
HGVS:: NC_000019.10:g.43464934_43464935del, NC_000019.9:g.43969086_43969087del

Select item 14898846412.

rs1489884641 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A,T [Show Flanks]
Chromosome:: 19:43464613 (GRCh38)
19:43968765 (GRCh37)
Canonical SPDI:: NC_000019.10:43464612:G:A,NC_000019.10:43464612:G:T
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000008/2 (TOPMED)
HGVS:: NC_000019.10:g.43464613G>A, NC_000019.10:g.43464613G>T, NC_000019.9:g.43968765G>A, NC_000019.9:g.43968765G>T

Select item 14894900583.

rs1489490058 [Homo sapiens]

Variant type:: SNV
Alleles:: C>A [Show Flanks]
Chromosome:: 19:43463425 (GRCh38)
19:43967577 (GRCh37)
Canonical SPDI:: NC_000019.10:43463424:C:A
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000004/1 (TOPMED)
A=0.000007/1 (GnomAD)
A=0.000007/1 (GnomAD_exomes)
HGVS:: NC_000019.10:g.43463425C>A, NC_000019.9:g.43967577C>A

Select item 14892479384.

rs1489247938 [Homo sapiens]

Variant type:: SNV
Alleles:: A>C [Show Flanks]
Chromosome:: 19:43462645 (GRCh38)
19:43966797 (GRCh37)
Canonical SPDI:: NC_000019.10:43462644:A:C
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0.000224/1 (ALFA)
C=0.000007/1 (GnomAD)
C=0.000223/1 (Estonian)
HGVS:: NC_000019.10:g.43462645A>C, NC_000019.9:g.43966797A>C

Select item 14891649695.

rs1489164969 [Homo sapiens]

Variant type:: DELINS
Alleles:: ->GA [Show Flanks]
Chromosome:: 19:43461857 (GRCh38)
19:43966010 (GRCh37)
Canonical SPDI:: NC_000019.10:43461857:GAGA:GAGAGA
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: GAGAGA=0./0 (ALFA)
GA=0.000004/1 (GnomAD_exomes)
GA=0.000021/3 (GnomAD)
GA=0.00003/8 (TOPMED)
HGVS:: NC_000019.10:g.43461858GA[3], NC_000019.9:g.43966010GA[3]

Select item 14890514596.

rs1489051459 [Homo sapiens]

Variant type:: SNV
Alleles:: A>C [Show Flanks]
Chromosome:: 19:43462215 (GRCh38)
19:43966367 (GRCh37)
Canonical SPDI:: NC_000019.10:43462214:A:C
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0./0 (ALFA)
C=0.000007/1 (GnomAD)
C=0.000015/4 (TOPMED)
HGVS:: NC_000019.10:g.43462215A>C, NC_000019.9:g.43966367A>C

Select item 14876320217.

rs1487632021 [Homo sapiens]

Variant type:: SNV
Alleles:: C>G [Show Flanks]
Chromosome:: 19:43463369 (GRCh38)
19:43967521 (GRCh37)
Canonical SPDI:: NC_000019.10:43463368:C:G
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: G=0./0 (ALFA)
G=0.000004/1 (TOPMED)
G=0.000006/1 (GnomAD_exomes)
G=0.000007/1 (GnomAD)
HGVS:: NC_000019.10:g.43463369C>G, NC_000019.9:g.43967521C>G

Select item 14875028758.

rs1487502875 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 19:43465454 (GRCh38)
19:43969606 (GRCh37)
Canonical SPDI:: NC_000019.10:43465453:C:T
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
HGVS:: NC_000019.10:g.43465454C>T, NC_000019.9:g.43969606C>T

Select item 14873238219.

rs1487323821 [Homo sapiens]

Variant type:: DELINS
Alleles:: ->ACATGATCGCTGGCGTTGTAG [Show Flanks]
Chromosome:: 19:43463160 (GRCh38)
19:43967313 (GRCh37)
Canonical SPDI:: NC_000019.10:43463160:TTGTAGACATGATCGCTGGCGTTGTAG:TTGTAGACATGATCGCTGGCGTTGTAGACATGATCGCTGGCGTTGTAG
Gene:: LYPD3 (Varview)
Functional Consequence:: inframe_insertion,coding_sequence_variant
Validated:: by frequency,by cluster
MAF:: TTGTAGACATGATCGCTGGCG=0.000007/1 (GnomAD)
HGVS:: NC_000019.10:g.43463167_43463187dup, NC_000019.9:g.43967319_43967339dup, NM_014400.3:c.489_509dup, NM_014400.2:c.489_509dup, NP_055215.2:p.Asn163_Tyr169dup

Select item 148716046810.

rs1487160468 [Homo sapiens]

Variant type:: SNV
Alleles:: A>G [Show Flanks]
Chromosome:: 19:43466905 (GRCh38)
19:43971057 (GRCh37)
Canonical SPDI:: NC_000019.10:43466904:A:G
Gene:: LYPD3 (Varview)
Functional Consequence:: 2KB_upstream_variant,upstream_transcript_variant
Validated:: by frequency,by alfa
MAF:: G=0./0 (ALFA)
G=0.000014/2 (GnomAD)
HGVS:: NC_000019.10:g.43466905A>G, NC_000019.9:g.43971057A>G

Select item 148696094111.

rs1486960941 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 19:43460381 (GRCh38)
19:43964533 (GRCh37)
Canonical SPDI:: NC_000019.10:43460380:G:A
Gene:: LYPD3 (Varview)
Functional Consequence:: downstream_transcript_variant,500B_downstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0.000071/1 (ALFA)
A=0.000004/1 (TOPMED)
A=0.000007/1 (GnomAD)
HGVS:: NC_000019.10:g.43460381G>A, NC_000019.9:g.43964533G>A

Select item 148666827712.

rs1486668277 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 19:43466986 (GRCh38)
19:43971138 (GRCh37)
Canonical SPDI:: NC_000019.10:43466985:T:C
Gene:: LYPD3 (Varview)
Functional Consequence:: 2KB_upstream_variant,upstream_transcript_variant
Validated:: by frequency,by alfa
MAF:: C=0./0 (ALFA)
C=0.000008/2 (TOPMED)
HGVS:: NC_000019.10:g.43466986T>C, NC_000019.9:g.43971138T>C

Select item 148569015813.

rs1485690158 [Homo sapiens]

Variant type:: DELINS
Alleles:: ->C [Show Flanks]
Chromosome:: 19:43465514 (GRCh38)
19:43969667 (GRCh37)
Canonical SPDI:: NC_000019.10:43465514:C:CC
Gene:: LYPD3 (Varview)
Functional Consequence:: frameshift_variant,coding_sequence_variant
Validated:: by frequency
MAF:: C=0.000004/1 (GnomAD_exomes)
HGVS:: NC_000019.10:g.43465515dup, NC_000019.9:g.43969667dup, NM_014400.3:c.57dup, NM_014400.2:c.57dup, NP_055215.2:p.Leu20fs

Select item 148548955114.

rs1485489551 [Homo sapiens]

Variant type:: SNV
Alleles:: C>G,T [Show Flanks]
Chromosome:: 19:43460929 (GRCh38)
19:43965081 (GRCh37)
Canonical SPDI:: NC_000019.10:43460928:C:G,NC_000019.10:43460928:C:T
Gene:: LYPD3 (Varview)
Functional Consequence:: 3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.000011/3 (TOPMED)
T=0.000014/2 (GnomAD)
HGVS:: NC_000019.10:g.43460929C>G, NC_000019.10:g.43460929C>T, NC_000019.9:g.43965081C>G, NC_000019.9:g.43965081C>T, NM_014400.3:c.*422G>C, NM_014400.3:c.*422G>A, NM_014400.2:c.*422G>C, NM_014400.2:c.*422G>A

Select item 148379466815.

rs1483794668 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 19:43461697 (GRCh38)
19:43965849 (GRCh37)
Canonical SPDI:: NC_000019.10:43461696:G:A
Gene:: LYPD3 (Varview)
Functional Consequence:: missense_variant,coding_sequence_variant
HGVS:: NC_000019.10:g.43461697G>A, NC_000019.9:g.43965849G>A, NM_014400.3:c.695C>T, NM_014400.2:c.695C>T, NP_055215.2:p.Ser232Phe

Select item 148376295316.

rs1483762953 [Homo sapiens]

Variant type:: DELINS
Alleles:: ->C [Show Flanks]
Chromosome:: 19:43463487 (GRCh38)
19:43967640 (GRCh37)
Canonical SPDI:: NC_000019.10:43463487:CCCC:CCCCC
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency
MAF:: C=0.000015/2 (GnomAD_exomes)
HGVS:: NC_000019.10:g.43463491dup, NC_000019.9:g.43967643dup

Select item 148365073117.

rs1483650731 [Homo sapiens]

Variant type:: SNV
Alleles:: A>G [Show Flanks]
Chromosome:: 19:43460629 (GRCh38)
19:43964781 (GRCh37)
Canonical SPDI:: NC_000019.10:43460628:A:G
Gene:: LYPD3 (Varview)
Functional Consequence:: downstream_transcript_variant,500B_downstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: G=0.000071/1 (ALFA)
G=0.000004/1 (TOPMED)
G=0.000007/1 (GnomAD)
HGVS:: NC_000019.10:g.43460629A>G, NC_000019.9:g.43964781A>G

Select item 148361950618.

rs1483619506 [Homo sapiens]

Variant type:: DELINS
Alleles:: GAGACACTCAGGGCATCAGAGGCC>- [Show Flanks]
Chromosome:: 19:43466360 (GRCh38)
19:43970512 (GRCh37)
Canonical SPDI:: NC_000019.10:43466351:CAGAGGCCGAGACACTCAGGGCATCAGAGGCC:CAGAGGCC
Gene:: LYPD3 (Varview)
Functional Consequence:: 2KB_upstream_variant,upstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: CAGAGGCC=0./0 (ALFA)
-=0.000008/2 (TOPMED)
-=0.001092/2 (Korea1K)
-=0.001699/28 (TOMMO)
HGVS:: NC_000019.10:g.43466360_43466383del, NC_000019.9:g.43970512_43970535del

Select item 148350625019.

rs1483506250 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 19:43461968 (GRCh38)
19:43966120 (GRCh37)
Canonical SPDI:: NC_000019.10:43461967:T:C
Gene:: LYPD3 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa
MAF:: C=0./0 (ALFA)
C=0.000004/1 (TOPMED)
HGVS:: NC_000019.10:g.43461968T>C, NC_000019.9:g.43966120T>C

Select item 148251734920.

rs1482517349 [Homo sapiens]

Variant type:: SNV
Alleles:: G>T [Show Flanks]
Chromosome:: 19:43466105 (GRCh38)
19:43970257 (GRCh37)
Canonical SPDI:: NC_000019.10:43466104:G:T
Gene:: LYPD3 (Varview)
Functional Consequence:: 2KB_upstream_variant,upstream_transcript_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
T=0.000007/1 (GnomAD)
HGVS:: NC_000019.10:g.43466105G>T, NC_000019.9:g.43970257G>T

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