Variant report

Variant	rs62400556
Chromosome Location	chr6:24631364-24631365
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:24624408..24625994-chr6:24628936..24631566,2	K562	blood:
2	chr6:24630057..24632669-chr6:24659519..24661974,2	K562	blood:

Extended variants
information (count: 32 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:28)

rs_ID	r²[population]
rs11559067	1.00[AFR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs16889567	0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17243136	1.00[AFR][1000 genomes];0.82[EUR][1000 genomes]
rs17243276	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17249561	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17249729	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17412874	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17419844	1.00[ASN][1000 genomes]
rs17491730	1.00[ASN][1000 genomes]
rs3212238	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400559	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400760	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400773	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400774	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400783	0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62400786	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62400787	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62400789	1.00[ASN][1000 genomes]
rs62400790	1.00[ASN][1000 genomes]
rs62400791	1.00[AFR][1000 genomes]
rs62400792	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62400793	1.00[ASN][1000 genomes]
rs62400795	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs62400819	1.00[ASN][1000 genomes]
rs62402860	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62402863	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs62402864	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1020653	chr6:24557870-24638244	Weak transcription Enhancers Bivalent Enhancer Flanking Active TSS Active TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	9 gene(s)	inside rSNPs	diseases
2	esv3508002	chr6:24618580-24732946	Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
3	esv3508003	chr6:24618580-24732946	Weak transcription Genic enhancers Strong transcription Enhancers Active TSS Transcr. at gene 5' and 3' Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
4	nsv601164	chr6:24625091-24661599	Strong transcription Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:27 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:24621600-24631400	Weak transcription	Fetal Brain Male	brain
2	chr6:24623400-24631400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
3	chr6:24630000-24634400	Weak transcription	Pancreatic Islets	Pancreatic Islet
4	chr6:24631000-24631400	Enhancers	Fetal Heart	heart
5	chr6:24631000-24631800	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:24631000-24632000	Enhancers	HUES6 Cell Line	embryonic stem cell
7	chr6:24631000-24632000	Enhancers	iPS-15b Cell Line	embryonic stem cell
8	chr6:24631000-24633200	Enhancers	HUES64 Cell Line	embryonic stem cell
9	chr6:24631000-24633200	Enhancers	iPS-18 Cell Line	embryonic stem cell
10	chr6:24631000-24633800	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
11	chr6:24631200-24631600	Enhancers	ES-WA7 Cell Line	embryonic stem cell
12	chr6:24631200-24631600	Enhancers	H1 Cell Line	embryonic stem cell
13	chr6:24631200-24631600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
14	chr6:24631200-24631800	Enhancers	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr6:24631200-24631800	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr6:24631200-24631800	Enhancers	Colon Smooth Muscle	Colon
17	chr6:24631200-24631800	Enhancers	Fetal Stomach	stomach
18	chr6:24631200-24632200	Enhancers	ES-I3 Cell Line	embryonic stem cell
19	chr6:24631200-24632200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr6:24631200-24632200	Enhancers	Left Ventricle	heart
21	chr6:24631200-24633000	Enhancers	HUES48 Cell Line	embryonic stem cell
22	chr6:24631200-24633000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:24631200-24633000	Enhancers	Cortex derived primary cultured neurospheres	brain
24	chr6:24631200-24633000	Enhancers	Brain Hippocampus Middle	brain
25	chr6:24631200-24633000	Enhancers	Fetal Intestine Large	intestine
26	chr6:24631200-24633600	Enhancers	Brain Germinal Matrix	brain
27	chr6:24631200-24633800	Enhancers	Fetal Brain Female	brain

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