Variant report

Variant	rs12245169
Chromosome Location	chr10:98128750-98128751
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 17 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10736104	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs17387939	0.92[CEU][hapmap];0.84[EUR][1000 genomes]
rs17388474	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs17479230	0.92[CEU][hapmap];0.85[EUR][1000 genomes]
rs1923701	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs2861575	0.81[CEU][hapmap]
rs2901991	0.85[EUR][1000 genomes]
rs3814222	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs41291624	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4919005	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs56148171	0.84[EUR][1000 genomes]
rs7091125	0.92[CEU][hapmap];1.00[CHB][hapmap];0.87[EUR][1000 genomes]
rs72829509	0.84[EUR][1000 genomes]
rs72829512	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv3413353	chr10:98039370-98561524	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	45 gene(s)	inside rSNPs	diseases
2	nsv831950	chr10:98080972-98245434	Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Weak transcription Bivalent/Poised TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
3	nsv1047657	chr10:98123234-98183487	Weak transcription Active TSS Genic enhancers Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:98117000-98134400	Weak transcription	Thymus	Thymus
2	chr10:98118800-98130200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr10:98125000-98129000	Enhancers	Brain Cingulate Gyrus	brain
4	chr10:98125000-98129000	Enhancers	Brain Hippocampus Middle	brain
5	chr10:98125200-98128800	Enhancers	Brain Inferior Temporal Lobe	brain
6	chr10:98126200-98129600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr10:98126600-98129600	Weak transcription	Placenta	Placenta
8	chr10:98126800-98130400	Weak transcription	Duodenum Smooth Muscle	Duodenum
9	chr10:98127000-98129600	Weak transcription	Hela-S3	cervix
10	chr10:98127400-98133800	Weak transcription	Fetal Brain Female	brain
11	chr10:98127600-98129000	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr10:98127600-98130000	Weak transcription	Brain Anterior Caudate	brain
13	chr10:98127600-98130400	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr10:98127800-98129000	Enhancers	Brain Substantia Nigra	brain
15	chr10:98128000-98133400	Weak transcription	Right Ventricle	heart
16	chr10:98128200-98129600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr10:98128200-98134800	Weak transcription	Left Ventricle	heart
18	chr10:98128400-98128800	Enhancers	Fetal Adrenal Gland	Adrenal Gland
19	chr10:98128600-98133800	Weak transcription	Brain Angular Gyrus	brain

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dbSNP/dbVar ID: rs12345 /nsv7879
a single nucleotide as 0-based coordinates: chr1:12345
chromosomal regions: chr1:12345-34567

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