SNP Links for Gene (Select 167410) - SNP

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Select item 14915647941.

rs1491564794 [Homo sapiens]

Variant type:: DEL
Alleles:: GA>- [Show Flanks]
Chromosome:: 5:97117921 (GRCh38)
5:96453625 (GRCh37)
Canonical SPDI:: NC_000005.10:97117920:GA:
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa
MAF:: -=0./0 (ALFA)
HGVS:: NC_000005.10:g.97117921_97117922del, NC_000005.9:g.96453625_96453626del

Select item 14914543642.

rs1491454364 [Homo sapiens]

Variant type:: DEL
Alleles:: CT>- [Show Flanks]
Chromosome:: 5:97144067 (GRCh38)
5:96479771 (GRCh37)
Canonical SPDI:: NC_000005.10:97144066:CT:
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,upstream_transcript_variant,2KB_upstream_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa
MAF:: -=0./0 (ALFA)
-=0.000008/1 (GnomAD)
HGVS:: NC_000005.10:g.97144067_97144068del, NC_000005.9:g.96479771_96479772del

Select item 14914421723.

rs1491442172 has merged into rs140818193 [Homo sapiens]

Variant type:: DELINS
Alleles:: TTTT>-,T,TT,TTT,TTTTT,TTTTTT,TTTTTTT,TTTTTTTT,TTTTTTTTTT,TTTTTTTTTTT,TTTTTTTTTTTT,TTTTTTTTTTTTT,TTTTTTTTTTTTTT,TTTTTTTTTTTTTTT,TTTTTTTTTTTTTTTT,TTTTTTTTTTTTTTTTT,TTTTTTTTTTTTTTTTTT,TTTTTTTTTTTTTTTTTTTTTTTTT [Show Flanks]
Chromosome:: 5:97144082 (GRCh38)
5:96479786 (GRCh37)
Canonical SPDI:: NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,upstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: TTTTTTTTTTTTTTTTTTTT=0./0 (ALFA)
-=0.01171/7 (NorthernSweden)
T=0.25/2 (KOREAN)
HGVS:: NC_000005.10:g.97144082_97144085del, NC_000005.10:g.97144083_97144085del, NC_000005.10:g.97144084_97144085del, NC_000005.10:g.97144085del, NC_000005.10:g.97144085dup, NC_000005.10:g.97144084_97144085dup, NC_000005.10:g.97144083_97144085dup, NC_000005.10:g.97144082_97144085dup, NC_000005.10:g.97144080_97144085dup, NC_000005.10:g.97144079_97144085dup, NC_000005.10:g.97144078_97144085dup, NC_000005.10:g.97144077_97144085dup, NC_000005.10:g.97144076_97144085dup, NC_000005.10:g.97144075_97144085dup, NC_000005.10:g.97144074_97144085dup, NC_000005.10:g.97144073_97144085dup, NC_000005.10:g.97144072_97144085dup, NC_000005.10:g.97144085_97144086insTTTTTTTTTTTTTTTTTTTTT, NC_000005.9:g.96479786_96479789del, NC_000005.9:g.96479787_96479789del, NC_000005.9:g.96479788_96479789del, NC_000005.9:g.96479789del, NC_000005.9:g.96479789dup, NC_000005.9:g.96479788_96479789dup, NC_000005.9:g.96479787_96479789dup, NC_000005.9:g.96479786_96479789dup, NC_000005.9:g.96479784_96479789dup, NC_000005.9:g.96479783_96479789dup, NC_000005.9:g.96479782_96479789dup, NC_000005.9:g.96479781_96479789dup, NC_000005.9:g.96479780_96479789dup, NC_000005.9:g.96479779_96479789dup, NC_000005.9:g.96479778_96479789dup, NC_000005.9:g.96479777_96479789dup, NC_000005.9:g.96479776_96479789dup, NC_000005.9:g.96479789_96479790insTTTTTTTTTTTTTTTTTTTTT

Select item 14912298514.

rs1491229851 [Homo sapiens]

Variant type:: DELINS
Alleles:: GA>- [Show Flanks]
Chromosome:: 5:97115772 (GRCh38)
5:96451476 (GRCh37)
Canonical SPDI:: NC_000005.10:97115770:AGA:A
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
-=0.000004/1 (TOPMED)
-=0.000007/1 (GnomAD)
HGVS:: NC_000005.10:g.97115772_97115773del, NC_000005.9:g.96451476_96451477del

Select item 14911516945.

rs1491151694 has merged into rs3041175 [Homo sapiens]

Variant type:: DELINS
Alleles:: AAAA>-,A,AA,AAA,AAAAA,AAAAAA [Show Flanks]
Chromosome:: 5:97117933 (GRCh38)
5:96453637 (GRCh37)
Canonical SPDI:: NC_000005.10:97117921:AAAAAAAAAAAAAAA:AAAAAAAAAAA,NC_000005.10:97117921:AAAAAAAAAAAAAAA:AAAAAAAAAAAA,NC_000005.10:97117921:AAAAAAAAAAAAAAA:AAAAAAAAAAAAA,NC_000005.10:97117921:AAAAAAAAAAAAAAA:AAAAAAAAAAAAAA,NC_000005.10:97117921:AAAAAAAAAAAAAAA:AAAAAAAAAAAAAAAA,NC_000005.10:97117921:AAAAAAAAAAAAAAA:AAAAAAAAAAAAAAAAA
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: genic_downstream_transcript_variant,intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: AAAAAAAAAAAA=0./0 (ALFA)
-=0.3288/194 (NorthernSweden)
AA=0.4974/2491 (1000Genomes)
HGVS:: NC_000005.10:g.97117933_97117936del, NC_000005.10:g.97117934_97117936del, NC_000005.10:g.97117935_97117936del, NC_000005.10:g.97117936del, NC_000005.10:g.97117936dup, NC_000005.10:g.97117935_97117936dup, NC_000005.9:g.96453637_96453640del, NC_000005.9:g.96453638_96453640del, NC_000005.9:g.96453639_96453640del, NC_000005.9:g.96453640del, NC_000005.9:g.96453640dup, NC_000005.9:g.96453639_96453640dup

Select item 14910868836.

rs1491086883 has merged into rs140818193 [Homo sapiens]

Variant type:: DELINS
Alleles:: TTTT>-,T,TT,TTT,TTTTT,TTTTTT,TTTTTTT,TTTTTTTT,TTTTTTTTTT,TTTTTTTTTTT,TTTTTTTTTTTT,TTTTTTTTTTTTT,TTTTTTTTTTTTTT,TTTTTTTTTTTTTTT,TTTTTTTTTTTTTTTT,TTTTTTTTTTTTTTTTT,TTTTTTTTTTTTTTTTTT,TTTTTTTTTTTTTTTTTTTTTTTTT [Show Flanks]
Chromosome:: 5:97144082 (GRCh38)
5:96479786 (GRCh37)
Canonical SPDI:: NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT,NC_000005.10:97144067:TTTTTTTTTTTTTTTTTT:TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant,upstream_transcript_variant,2KB_upstream_variant
Validated:: by frequency,by alfa,by cluster
MAF:: TTTTTTTTTTTTTTTTTTTT=0./0 (ALFA)
-=0.01171/7 (NorthernSweden)
T=0.25/2 (KOREAN)
HGVS:: NC_000005.10:g.97144082_97144085del, NC_000005.10:g.97144083_97144085del, NC_000005.10:g.97144084_97144085del, NC_000005.10:g.97144085del, NC_000005.10:g.97144085dup, NC_000005.10:g.97144084_97144085dup, NC_000005.10:g.97144083_97144085dup, NC_000005.10:g.97144082_97144085dup, NC_000005.10:g.97144080_97144085dup, NC_000005.10:g.97144079_97144085dup, NC_000005.10:g.97144078_97144085dup, NC_000005.10:g.97144077_97144085dup, NC_000005.10:g.97144076_97144085dup, NC_000005.10:g.97144075_97144085dup, NC_000005.10:g.97144074_97144085dup, NC_000005.10:g.97144073_97144085dup, NC_000005.10:g.97144072_97144085dup, NC_000005.10:g.97144085_97144086insTTTTTTTTTTTTTTTTTTTTT, NC_000005.9:g.96479786_96479789del, NC_000005.9:g.96479787_96479789del, NC_000005.9:g.96479788_96479789del, NC_000005.9:g.96479789del, NC_000005.9:g.96479789dup, NC_000005.9:g.96479788_96479789dup, NC_000005.9:g.96479787_96479789dup, NC_000005.9:g.96479786_96479789dup, NC_000005.9:g.96479784_96479789dup, NC_000005.9:g.96479783_96479789dup, NC_000005.9:g.96479782_96479789dup, NC_000005.9:g.96479781_96479789dup, NC_000005.9:g.96479780_96479789dup, NC_000005.9:g.96479779_96479789dup, NC_000005.9:g.96479778_96479789dup, NC_000005.9:g.96479777_96479789dup, NC_000005.9:g.96479776_96479789dup, NC_000005.9:g.96479789_96479790insTTTTTTTTTTTTTTTTTTTTT

Select item 14909671157.

rs1490967115 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 5:97093865 (GRCh38)
5:96429569 (GRCh37)
Canonical SPDI:: NC_000005.10:97093864:G:A
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: 3_prime_UTR_variant,intron_variant
Validated:: by frequency,by alfa
MAF:: A=0./0 (ALFA)
A=0.000007/1 (GnomAD)
HGVS:: NC_000005.10:g.97093865G>A, NC_000005.9:g.96429569G>A, NM_153234.5:c.*883C>T, NM_153234.4:c.*883C>T

Select item 14908944148.

rs1490894414 [Homo sapiens]

Variant type:: SNV
Alleles:: T>G [Show Flanks]
Chromosome:: 5:97119337 (GRCh38)
5:96455041 (GRCh37)
Canonical SPDI:: NC_000005.10:97119336:T:G
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_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_000005.10:g.97119337T>G, NC_000005.9:g.96455041T>G

Select item 14908372599.

rs1490837259 [Homo sapiens]

Variant type:: SNV
Alleles:: T>A [Show Flanks]
Chromosome:: 5:97128258 (GRCh38)
5:96463962 (GRCh37)
Canonical SPDI:: NC_000005.10:97128257:T:A
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000007/1 (GnomAD)
A=0.000008/2 (TOPMED)
HGVS:: NC_000005.10:g.97128258T>A, NC_000005.9:g.96463962T>A

Select item 149080888110.

rs1490808881 [Homo sapiens]

Variant type:: SNV
Alleles:: C>A [Show Flanks]
Chromosome:: 5:97111899 (GRCh38)
5:96447603 (GRCh37)
Canonical SPDI:: NC_000005.10:97111898:C:A
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000007/1 (GnomAD)
A=0.000008/2 (TOPMED)
HGVS:: NC_000005.10:g.97111899C>A, NC_000005.9:g.96447603C>A

Select item 149077339111.

rs1490773391 [Homo sapiens]

Variant type:: DELINS
Alleles:: ->T [Show Flanks]
Chromosome:: 5:97110753 (GRCh38)
5:96446458 (GRCh37)
Canonical SPDI:: NC_000005.10:97110753:TTTT:TTTTT
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa
MAF:: TTTTT=0./0 (ALFA)
T=0.000004/1 (TOPMED)
HGVS:: NC_000005.10:g.97110757dup, NC_000005.9:g.96446461dup

Select item 149067382412.

rs1490673824 [Homo sapiens]

Variant type:: SNV
Alleles:: A>C,G [Show Flanks]
Chromosome:: 5:97128780 (GRCh38)
5:96464484 (GRCh37)
Canonical SPDI:: NC_000005.10:97128779:A:C,NC_000005.10:97128779:A:G
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: C=0./0 (ALFA)
C=0.000008/2 (TOPMED)
G=0.000672/11 (TOMMO)
HGVS:: NC_000005.10:g.97128780A>C, NC_000005.10:g.97128780A>G, NC_000005.9:g.96464484A>C, NC_000005.9:g.96464484A>G

Select item 149061038913.

rs1490610389 [Homo sapiens]

Variant type:: SNV
Alleles:: A>T [Show Flanks]
Chromosome:: 5:97111304 (GRCh38)
5:96447008 (GRCh37)
Canonical SPDI:: NC_000005.10:97111303:A:T
Gene:: LIX1 (Varview), LIX1-AS1 (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_000005.10:g.97111304A>T, NC_000005.9:g.96447008A>T

Select item 149059702714.

rs1490597027 [Homo sapiens]

Variant type:: SNV
Alleles:: G>T [Show Flanks]
Chromosome:: 5:97142505 (GRCh38)
5:96478209 (GRCh37)
Canonical SPDI:: NC_000005.10:97142504:G:T
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,synonymous_variant,genic_downstream_transcript_variant,coding_sequence_variant
Validated:: by frequency
MAF:: T=0.000012/3 (GnomAD_exomes)
HGVS:: NC_000005.10:g.97142505G>T, NC_000005.9:g.96478209G>T, NM_153234.5:c.72C>A, NM_153234.4:c.72C>A

Select item 149054158615.

rs1490541586 [Homo sapiens]

Variant type:: DELINS
Alleles:: GTCT>- [Show Flanks]
Chromosome:: 5:97129702 (GRCh38)
5:96465406 (GRCh37)
Canonical SPDI:: NC_000005.10:97129699:CTGTCT:CT
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa
MAF:: CT=0./0 (ALFA)
-=0.000019/5 (TOPMED)
HGVS:: NC_000005.10:g.97129702_97129705del, NC_000005.9:g.96465406_96465409del

Select item 149044012416.

rs1490440124 [Homo sapiens]

Variant type:: SNV
Alleles:: G>A [Show Flanks]
Chromosome:: 5:97120638 (GRCh38)
5:96456342 (GRCh37)
Canonical SPDI:: NC_000005.10:97120637:G:A
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: A=0./0 (ALFA)
A=0.000007/1 (GnomAD)
A=0.000008/2 (TOPMED)
HGVS:: NC_000005.10:g.97120638G>A, NC_000005.9:g.96456342G>A

Select item 149040374117.

rs1490403741 [Homo sapiens]

Variant type:: SNV
Alleles:: G>C [Show Flanks]
Chromosome:: 5:97093947 (GRCh38)
5:96429651 (GRCh37)
Canonical SPDI:: NC_000005.10:97093946:G:C
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: 3_prime_UTR_variant,intron_variant
Validated:: by frequency,by alfa
MAF:: C=0./0 (ALFA)
C=0.000004/1 (TOPMED)
HGVS:: NC_000005.10:g.97093947G>C, NC_000005.9:g.96429651G>C, NM_153234.5:c.*801C>G, NM_153234.4:c.*801C>G

Select item 149034367418.

rs1490343674 [Homo sapiens]

Variant type:: SNV
Alleles:: T>G [Show Flanks]
Chromosome:: 5:97141013 (GRCh38)
5:96476717 (GRCh37)
Canonical SPDI:: NC_000005.10:97141012:T:G
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_variant
Validated:: by frequency,by alfa,by cluster
MAF:: G=0./0 (ALFA)
G=0.000029/4 (GnomAD)
G=0.000049/13 (TOPMED)
HGVS:: NC_000005.10:g.97141013T>G, NC_000005.9:g.96476717T>G

Select item 149030333219.

rs1490303332 [Homo sapiens]

Variant type:: SNV
Alleles:: C>G [Show Flanks]
Chromosome:: 5:97137964 (GRCh38)
5:96473668 (GRCh37)
Canonical SPDI:: NC_000005.10:97137963:C:G
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant,genic_downstream_transcript_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_000005.10:g.97137964C>G, NC_000005.9:g.96473668C>G

Select item 149026475620.

rs1490264756 [Homo sapiens]

Variant type:: SNV
Alleles:: A>G [Show Flanks]
Chromosome:: 5:97095918 (GRCh38)
5:96431622 (GRCh37)
Canonical SPDI:: NC_000005.10:97095917:A:G
Gene:: LIX1 (Varview), LIX1-AS1 (Varview)
Functional Consequence:: intron_variant
Validated:: by frequency,by alfa
MAF:: G=0./0 (ALFA)
G=0.000004/1 (TOPMED)
HGVS:: NC_000005.10:g.97095918A>G, NC_000005.9:g.96431622A>G

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