SNP Links for Gene (Select 401562) - SNP

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Select item 14906120871.

rs1490612087 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 9:136982452 (GRCh38)
9:139876904 (GRCh37)
Canonical SPDI:: NC_000009.12:136982451:C:T
Gene:: LCNL1 (Varview)
Functional Consequence:: upstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.000014/2 (GnomAD)
T=0.000015/4 (TOPMED)
HGVS:: NC_000009.12:g.136982452C>T, NC_000009.11:g.139876904C>T

Select item 14902627702.

rs1490262770 [Homo sapiens]

Variant type:: SNV
Alleles:: T>G [Show Flanks]
Chromosome:: 9:136981829 (GRCh38)
9:139876281 (GRCh37)
Canonical SPDI:: NC_000009.12:136981828:T:G
Gene:: PTGDS (Varview), LCNL1 (Varview)
Functional Consequence:: 500B_downstream_variant,downstream_transcript_variant,upstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: G=0./0 (ALFA)
G=0.000004/1 (TOPMED)
G=0.000007/1 (GnomAD)
HGVS:: NC_000009.12:g.136981829T>G, NC_000009.11:g.139876281T>G

Select item 14901205453.

rs1490120545 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 9:136982822 (GRCh38)
9:139877274 (GRCh37)
Canonical SPDI:: NC_000009.12:136982821:G:A
Gene:: LCNL1 (Varview)
Functional Consequence:: upstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa
MAF:: A=0./0 (ALFA)
A=0.000011/3 (TOPMED)
HGVS:: NC_000009.12:g.136982822G>A, NC_000009.11:g.139877274G>A

Select item 14897502204.

rs1489750220 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 9:136982305 (GRCh38)
9:139876757 (GRCh37)
Canonical SPDI:: NC_000009.12:136982304:G:A
Gene:: LCNL1 (Varview)
Functional Consequence:: upstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0.000071/1 (ALFA)
A=0.000004/1 (TOPMED)
A=0.000014/2 (GnomAD)
HGVS:: NC_000009.12:g.136982305G>A, NC_000009.11:g.139876757G>A

Select item 14897115605.

rs1489711560 [Homo sapiens]

Variant type:: DELINS
Alleles:: C>-,CC [Show Flanks]
Chromosome:: 9:136986173 (GRCh38)
9:139880625 (GRCh37)
Canonical SPDI:: NC_000009.12:136986172:CCCC:CCC,NC_000009.12:136986172:CCCC:CCCCC
Gene:: LCNL1 (Varview)
Functional Consequence:: 500B_downstream_variant,downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: CCCCC=0./0 (ALFA)
-=0.000007/1 (GnomAD)
HGVS:: NC_000009.12:g.136986176del, NC_000009.12:g.136986176dup, NC_000009.11:g.139880628del, NC_000009.11:g.139880628dup

Select item 14894755276.

rs1489475527 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 9:136983275 (GRCh38)
9:139877727 (GRCh37)
Canonical SPDI:: NC_000009.12:136983274:G:A
Gene:: LCNL1 (Varview)
Functional Consequence:: 5_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000004/1 (TOPMED)
A=0.000007/1 (GnomAD)
HGVS:: NC_000009.12:g.136983275G>A, NC_000009.11:g.139877727G>A, NM_207510.4:c.-312G>A, NM_207510.3:c.-312G>A

Select item 14890153057.

rs1489015305 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 9:136983395 (GRCh38)
9:139877847 (GRCh37)
Canonical SPDI:: NC_000009.12:136983394:G:A
Gene:: LCNL1 (Varview)
Functional Consequence:: 5_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000008/2 (TOPMED)
A=0.000021/3 (GnomAD)
HGVS:: NC_000009.12:g.136983395G>A, NC_000009.11:g.139877847G>A, NM_207510.4:c.-192G>A, NM_207510.3:c.-192G>A

Select item 14884908688.

rs1488490868 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 9:136983731 (GRCh38)
9:139878183 (GRCh37)
Canonical SPDI:: NC_000009.12:136983730:C:T
Gene:: LCNL1 (Varview)
Functional Consequence:: intron_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_000009.12:g.136983731C>T, NC_000009.11:g.139878183C>T

Select item 14870626409.

rs1487062640 [Homo sapiens]

Variant type:: SNV
Alleles:: C>G,T [Show Flanks]
Chromosome:: 9:136984179 (GRCh38)
9:139878631 (GRCh37)
Canonical SPDI:: NC_000009.12:136984178:C:G,NC_000009.12:136984178:C:T
Gene:: LCNL1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
G=0.000004/1 (TOPMED)
T=0.000007/1 (GnomAD)
HGVS:: NC_000009.12:g.136984179C>G, NC_000009.12:g.136984179C>T, NC_000009.11:g.139878631C>G, NC_000009.11:g.139878631C>T

Select item 148634347710.

rs1486343477 [Homo sapiens]

Variant type:: SNV
Alleles:: A>G [Show Flanks]
Chromosome:: 9:136982716 (GRCh38)
9:139877168 (GRCh37)
Canonical SPDI:: NC_000009.12:136982715:A:G
Gene:: LCNL1 (Varview)
Functional Consequence:: upstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: G=0./0 (ALFA)
G=0.000008/2 (TOPMED)
HGVS:: NC_000009.12:g.136982716A>G, NC_000009.11:g.139877168A>G

Select item 148617213311.

rs1486172133 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 9:136982596 (GRCh38)
9:139877048 (GRCh37)
Canonical SPDI:: NC_000009.12:136982595:G:A
Gene:: LCNL1 (Varview)
Functional Consequence:: upstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa
MAF:: A=0./0 (ALFA)
A=0.000007/1 (GnomAD)
HGVS:: NC_000009.12:g.136982596G>A, NC_000009.11:g.139877048G>A

Select item 148589855612.

rs1485898556 [Homo sapiens]

Variant type:: SNV
Alleles:: C>A,T [Show Flanks]
Chromosome:: 9:136985273 (GRCh38)
9:139879725 (GRCh37)
Canonical SPDI:: NC_000009.12:136985272:C:A,NC_000009.12:136985272:C:T
Gene:: LCNL1 (Varview)
Functional Consequence:: 3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.000007/1 (GnomAD)
T=0.000008/2 (TOPMED)
HGVS:: NC_000009.12:g.136985273C>A, NC_000009.12:g.136985273C>T, NC_000009.11:g.139879725C>A, NC_000009.11:g.139879725C>T, NM_207510.4:c.*262C>A, NM_207510.4:c.*262C>T, NM_207510.3:c.*262C>A, NM_207510.3:c.*262C>T

Select item 148541981413.

rs1485419814 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A,C [Show Flanks]
Chromosome:: 9:136983350 (GRCh38)
9:139877802 (GRCh37)
Canonical SPDI:: NC_000009.12:136983349:G:A,NC_000009.12:136983349:G:C
Gene:: LCNL1 (Varview)
Functional Consequence:: 5_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0./0 (ALFA)
A=0.00007/2 (TOMMO)
HGVS:: NC_000009.12:g.136983350G>A, NC_000009.12:g.136983350G>C, NC_000009.11:g.139877802G>A, NC_000009.11:g.139877802G>C, NM_207510.4:c.-237G>A, NM_207510.4:c.-237G>C, NM_207510.3:c.-237G>A, NM_207510.3:c.-237G>C

Select item 148522430614.

rs1485224306 [Homo sapiens]

Variant type:: SNV
Alleles:: G>T [Show Flanks]
Chromosome:: 9:136982271 (GRCh38)
9:139876723 (GRCh37)
Canonical SPDI:: NC_000009.12:136982270:G:T
Gene:: LCNL1 (Varview)
Functional Consequence:: upstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa
MAF:: T=0./0 (ALFA)
HGVS:: NC_000009.12:g.136982271G>T, NC_000009.11:g.139876723G>T

Select item 148513428015.

rs1485134280 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 9:136985298 (GRCh38)
9:139879750 (GRCh37)
Canonical SPDI:: NC_000009.12:136985297:G:A
Gene:: LCNL1 (Varview)
Functional Consequence:: 3_prime_UTR_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0.000071/1 (ALFA)
A=0.000004/1 (TOPMED)
A=0.000021/3 (GnomAD)
HGVS:: NC_000009.12:g.136985298G>A, NC_000009.11:g.139879750G>A, NM_207510.4:c.*287G>A, NM_207510.3:c.*287G>A

Select item 148464044816.

rs1484640448 [Homo sapiens]

Variant type:: SNV
Alleles:: T>C [Show Flanks]
Chromosome:: 9:136984761 (GRCh38)
9:139879213 (GRCh37)
Canonical SPDI:: NC_000009.12:136984760:T:C
Gene:: LCNL1 (Varview)
Functional Consequence:: coding_sequence_variant,missense_variant
HGVS:: NC_000009.12:g.136984761T>C, NC_000009.11:g.139879213T>C, NM_207510.4:c.245T>C, NM_207510.3:c.245T>C, NP_997393.3:p.Phe82Ser

Select item 148461216617.

rs1484612166 [Homo sapiens]

Variant type:: DELINS
Alleles:: ->CCCAGC [Show Flanks]
Chromosome:: 9:136985925 (GRCh38)
9:139880378 (GRCh37)
Canonical SPDI:: NC_000009.12:136985925:GCCCCAGCCCCAGC:GCCCCAGCCCCAGCCCCAGC
Gene:: LCNL1 (Varview)
Functional Consequence:: 500B_downstream_variant,downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: GCCCCAGCCCCAGCCCCAGC=0.000071/1 (ALFA)
GCCCCA=0.000007/1 (GnomAD)
GCCCCA=0.000011/3 (TOPMED)
HGVS:: NC_000009.12:g.136985928CCCAGC[3], NC_000009.11:g.139880380CCCAGC[3]

Select item 148342031818.

rs1483420318 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 9:136984832 (GRCh38)
9:139879284 (GRCh37)
Canonical SPDI:: NC_000009.12:136984831:G:A
Gene:: LCNL1 (Varview)
Functional Consequence:: coding_sequence_variant,missense_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000004/1 (TOPMED)
HGVS:: NC_000009.12:g.136984832G>A, NC_000009.11:g.139879284G>A, NM_207510.4:c.316G>A, NM_207510.3:c.316G>A, NP_997393.3:p.Ala106Thr

Select item 148115026819.

rs1481150268 [Homo sapiens]

Variant type:: SNV
Alleles:: C>T [Show Flanks]
Chromosome:: 9:136981542 (GRCh38)
9:139875994 (GRCh37)
Canonical SPDI:: NC_000009.12:136981541:C:T
Gene:: PTGDS (Varview), LCNL1 (Varview)
Functional Consequence:: upstream_transcript_variant,intron_variant,2KB_upstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: T=0./0 (ALFA)
T=0.000007/1 (GnomAD)
T=0.000011/3 (TOPMED)
HGVS:: NC_000009.12:g.136981542C>T, NC_000009.11:g.139875994C>T

Select item 148109988220.

rs1481099882 [Homo sapiens]

Variant type:: SNV
Alleles:: T>A [Show Flanks]
Chromosome:: 9:136981636 (GRCh38)
9:139876088 (GRCh37)
Canonical SPDI:: NC_000009.12:136981635:T:A
Gene:: PTGDS (Varview), LCNL1 (Varview)
Functional Consequence:: upstream_transcript_variant,3_prime_UTR_variant,2KB_upstream_variant
Validated:: by frequency,by alfa
MAF:: A=0./0 (ALFA)
HGVS:: NC_000009.12:g.136981636T>A, NC_000009.11:g.139876088T>A, NM_000954.6:c.*58T>A, NM_000954.5:c.*58T>A

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