Variant report

Variant	rs6461859
Chromosome Location	chr7:25350069-25350070
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr7:25348969..25350577-chr7:25356311..25358180,2	MCF-7	breast:

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10951066	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs11508474	0.89[EUR][1000 genomes]
rs12700601	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13234650	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs13238332	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34301789	0.92[EUR][1000 genomes]
rs34390682	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs34621620	0.91[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs34943627	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35658085	0.97[EUR][1000 genomes]
rs35763211	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35941234	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs36044676	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs56028402	0.95[EUR][1000 genomes]
rs57926354	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs59223799	0.98[EUR][1000 genomes]
rs59781737	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs6966737	0.81[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6975929	0.94[EUR][1000 genomes]
rs7783563	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7784574	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7784944	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7784951	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7785553	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs7799466	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7799869	0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7806094	0.91[AMR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv606424	chr7:24982529-25466521	Genic enhancers Flanking Active TSS Active TSS Enhancers Weak transcription Bivalent Enhancer Strong transcription Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv606426	chr7:25254125-25621579	Enhancers Bivalent Enhancer Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:24 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:25339600-25355000	Weak transcription	Fetal Brain Male	brain
2	chr7:25343600-25353800	Weak transcription	Ovary	ovary
3	chr7:25344600-25357200	Weak transcription	HUES6 Cell Line	embryonic stem cell
4	chr7:25345000-25351000	Weak transcription	H9 Cell Line	embryonic stem cell
5	chr7:25347000-25351200	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr7:25347400-25352600	Weak transcription	Primary neutrophils fromperipheralblood	blood
7	chr7:25347600-25350200	Enhancers	Brain Substantia Nigra	brain
8	chr7:25347600-25350400	Enhancers	Brain Anterior Caudate	brain
9	chr7:25348200-25351200	Enhancers	Sigmoid Colon	Sigmoid Colon
10	chr7:25349000-25350200	ZNF genes & repeats	Fetal Intestine Small	intestine
11	chr7:25349000-25354600	Weak transcription	Fetal Lung	lung
12	chr7:25349200-25350200	Weak transcription	Duodenum Mucosa	Duodenum
13	chr7:25349200-25352600	Weak transcription	Fetal Intestine Large	intestine
14	chr7:25349200-25354000	Weak transcription	Fetal Kidney	kidney
15	chr7:25349400-25350600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
16	chr7:25349400-25352400	Weak transcription	Cortex derived primary cultured neurospheres	brain
17	chr7:25349400-25353000	Weak transcription	Rectal Mucosa Donor 31	rectum
18	chr7:25349400-25353600	Weak transcription	Stomach Mucosa	stomach
19	chr7:25349400-25353800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr7:25350000-25350400	Weak transcription	Colon Smooth Muscle	Colon
21	chr7:25350000-25350800	Enhancers	Brain Cingulate Gyrus	brain
22	chr7:25350000-25350800	Weak transcription	Brain Hippocampus Middle	brain
23	chr7:25350000-25352600	Weak transcription	Brain Inferior Temporal Lobe	brain
24	chr7:25350000-25352600	Weak transcription	Pancreas	Pancrea

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