Variant report

Variant	rs12357684
Chromosome Location	chr10:6426966-6426967
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr10:6394666..6396685-chr10:6425529..6427954,2	MCF-7	breast:
2	chr10:6242967..6246327-chr10:6423283..6428365,4	MCF-7	breast:
3	chr10:6423351..6425174-chr10:6425567..6427975,2	MCF-7	breast:
4	chr10:6409324..6412633-chr10:6424291..6427904,3	MCF-7	breast:
5	chr10:6243729..6245988-chr10:6425970..6427736,2	MCF-7	breast:
6	chr10:6426504..6429518-chr10:6435004..6438172,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000170525	Chromatin interaction
ENSG00000213994	Chromatin interaction

Extended variants
information (count: 18 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs10906397	0.96[EUR][1000 genomes]
rs10906402	1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs11258423	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11258455	0.91[EUR][1000 genomes]
rs12257237	0.90[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12774756	0.97[EUR][1000 genomes]
rs34003677	0.83[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7898161	1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs7907167	0.90[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:9 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1042286	chr10:5795129-6578445	Enhancers Weak transcription Genic enhancers Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
2	nsv1054044	chr10:6155144-6487217	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	40 gene(s)	inside rSNPs	diseases
3	nsv894836	chr10:6246678-6435374	Flanking Active TSS Strong transcription Weak transcription Enhancers Bivalent Enhancer Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv430123	chr10:6309402-6448384	Flanking Active TSS Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
5	nsv430125	chr10:6322167-6477267	Enhancers Flanking Active TSS Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Active TSS Bivalent Enhancer 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
6	nsv1053440	chr10:6354798-6669469	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	32 gene(s)	inside rSNPs	diseases
7	nsv5676	chr10:6381200-6428950	Flanking Active TSS Enhancers Active TSS Weak transcription ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
8	nsv508567	chr10:6407682-6427637	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases
9	esv3391799	chr10:6426846-6431244	Enhancers Weak transcription ZNF genes & repeats Bivalent Enhancer Active TSS	Chromatin interactive region	3 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:6423400-6428400	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
2	chr10:6424600-6427000	Weak transcription	Colonic Mucosa	Colon
3	chr10:6424800-6427400	Weak transcription	Skeletal Muscle Female	skeletal muscle
4	chr10:6424800-6428200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
5	chr10:6424800-6429200	Enhancers	Primary neutrophils fromperipheralblood	blood
6	chr10:6425000-6428800	Enhancers	Brain Anterior Caudate	brain
7	chr10:6425200-6427800	Weak transcription	Primary monocytes fromperipheralblood	blood
8	chr10:6425600-6427000	Weak transcription	Brain Cingulate Gyrus	brain
9	chr10:6425600-6427000	Weak transcription	Lung	lung
10	chr10:6425600-6427000	Weak transcription	HSMM	muscle
11	chr10:6425600-6427200	Weak transcription	Muscle Satellite Cultured Cells	--
12	chr10:6425600-6427200	Weak transcription	Spleen	Spleen
13	chr10:6425600-6427200	Weak transcription	NHDF-Ad	bronchial
14	chr10:6425600-6427400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr10:6425600-6427400	Weak transcription	Gastric	stomach
16	chr10:6425600-6427400	Weak transcription	Monocytes-CD14+_RO01746	blood
17	chr10:6425600-6427600	Weak transcription	A549	lung
18	chr10:6425600-6427600	Weak transcription	NHLF	lung
19	chr10:6425600-6430200	Weak transcription	Dnd41	blood
20	chr10:6425600-6430800	Weak transcription	Adipose Nuclei	Adipose
21	chr10:6425600-6432800	Weak transcription	Ovary	ovary
22	chr10:6425600-6443600	Weak transcription	Aorta	Aorta
23	chr10:6425800-6427600	Weak transcription	Brain Hippocampus Middle	brain
24	chr10:6426000-6427200	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr10:6426200-6427000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
26	chr10:6426200-6427600	Enhancers	Breast Myoepithelial Primary Cells	Breast
27	chr10:6426200-6428400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
28	chr10:6426400-6427000	Enhancers	Thymus	Thymus
29	chr10:6426600-6427800	Weak transcription	Brain Substantia Nigra	brain
30	chr10:6426600-6428400	Enhancers	HSMMtube	muscle
31	chr10:6426800-6427200	Enhancers	Fetal Muscle Trunk	muscle

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