Variant report

Variant	rs564398966
Chromosome Location	chr10:99345138-99345139
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	ESR1	chr10:99345131-99345517	T-47D	breast:	n/a	n/a
2	E2F6	chr10:99344907-99345153	K562	blood:	n/a	chr10:99345052-99345063
3	USF2	chr10:99344859-99345202	HepG2	liver:	n/a	chr10:99345024-99345037
4	USF1	chr10:99344825-99345169	HepG2	liver:	n/a	chr10:99345024-99345035 chr10:99345024-99345037
5	BHLHE40	chr10:99344884-99345251	HepG2	liver:	n/a	chr10:99345024-99345037
6	USF1	chr10:99344885-99345155	K562	blood:	n/a	chr10:99345024-99345035 chr10:99345024-99345037
7	USF1	chr10:99344883-99345149	HepG2	liver:	n/a	chr10:99345024-99345035 chr10:99345024-99345037
8	MAX	chr10:99344459-99345598	HepG2	liver:	n/a	chr10:99345024-99345037 chr10:99345026-99345035 chr10:99345026-99345035
9	NR3C1	chr10:99344804-99345265	A549	lung:	n/a	chr10:99345073-99345087 chr10:99345071-99345088
10	E2F6	chr10:99344877-99345206	K562	blood:	n/a	chr10:99345052-99345063
11	MAX	chr10:99344849-99345177	K562	blood:	n/a	chr10:99345024-99345037 chr10:99345026-99345035 chr10:99345026-99345035
12	MAX	chr10:99344671-99345657	HepG2	liver:	n/a	chr10:99345024-99345037 chr10:99345026-99345035 chr10:99345026-99345035
13	USF2	chr10:99344906-99345198	GM12878	blood:	n/a	chr10:99345024-99345037
14	E2F6	chr10:99344924-99345159	K562	blood:	n/a	chr10:99345052-99345063
15	MXI1	chr10:99344856-99345165	HepG2	liver:	n/a	chr10:99345025-99345034
16	MAX	chr10:99344884-99345175	HepG2	liver:	n/a	chr10:99345024-99345037 chr10:99345026-99345035 chr10:99345026-99345035
17	TFAP2C	chr10:99345023-99345525	Hela-S3	cervix:	n/a	chr10:99345328-99345343

No.	Distal block	Cell Line	Cell type
1	chr10:99331295..99331846-chr10:99344716..99345312,2	MCF-7	breast:
2	chr10:99329733..99337149-chr10:99338392..99346753,19	MCF-7	breast:
3	chr10:99331139..99331795-chr10:99344716..99345483,2	MCF-7	breast:
4	chr10:99342912..99345937-chr10:99348140..99351473,3	K562	blood:

Variant related genes	Relation type
C10orf62	TF binding region
ENSG00000203942	Chromatin interaction
ENSG00000165887	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv1817777	chr10:99196035-99558169	Weak transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Strong transcription Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	66 gene(s)	inside rSNPs	diseases
2	nsv1036494	chr10:99267639-99345207	Weak transcription Active TSS Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Bivalent/Poised TSS Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
3	nsv1047359	chr10:99306501-99369013	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	11 gene(s)	inside rSNPs	diseases
4	nsv818782	chr10:99337572-99350128	Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Strong transcription	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
5	nsv971896	chr10:99338341-99349551	Enhancers Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	7 gene(s)	inside rSNPs	diseases
6	nsv975816	chr10:99344579-99354694	Flanking Active TSS Enhancers Weak transcription Genic enhancers Active TSS Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:40 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:99336000-99348800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr10:99342600-99345200	Enhancers	Fetal Muscle Trunk	muscle
3	chr10:99343000-99346600	Enhancers	Fetal Heart	heart
4	chr10:99343200-99345600	Enhancers	Fetal Muscle Leg	muscle
5	chr10:99343400-99345400	Enhancers	Breast Myoepithelial Primary Cells	Breast
6	chr10:99343400-99345400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
7	chr10:99343400-99345400	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr10:99343400-99345600	Enhancers	NHEK	skin
9	chr10:99343400-99346400	Enhancers	Adipose Nuclei	Adipose
10	chr10:99343400-99346600	Enhancers	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr10:99343600-99345600	Flanking Active TSS	HepG2	liver
12	chr10:99343600-99345600	Enhancers	NHDF-Ad	bronchial
13	chr10:99343600-99345800	Enhancers	Placenta	Placenta
14	chr10:99343800-99345200	Enhancers	Foreskin Melanocyte Primary Cells skin01	Skin
15	chr10:99343800-99345400	Enhancers	Fetal Adrenal Gland	Adrenal Gland
16	chr10:99344000-99349000	Weak transcription	Fetal Stomach	stomach
17	chr10:99344200-99345200	Active TSS	Left Ventricle	heart
18	chr10:99344200-99345200	Active TSS	Right Ventricle	heart
19	chr10:99344200-99345400	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
20	chr10:99344200-99345400	Flanking Active TSS	Hela-S3	cervix
21	chr10:99344200-99345600	Flanking Active TSS	Skeletal Muscle Female	skeletal muscle
22	chr10:99344200-99346600	Flanking Active TSS	Liver	Liver
23	chr10:99344200-99347000	Enhancers	Right Atrium	heart
24	chr10:99344200-99348800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
25	chr10:99344600-99345200	Flanking Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
26	chr10:99344600-99345400	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
27	chr10:99344600-99346400	Active TSS	Fetal Kidney	kidney
28	chr10:99344600-99346800	Enhancers	Brain Hippocampus Middle	brain
29	chr10:99344800-99345200	Active TSS	Pancreas	Pancrea
30	chr10:99344800-99346200	Enhancers	Brain Inferior Temporal Lobe	brain
31	chr10:99344800-99348800	Weak transcription	Fetal Intestine Small	intestine
32	chr10:99344800-99349000	Weak transcription	Brain Angular Gyrus	brain
33	chr10:99344800-99349600	Weak transcription	Fetal Intestine Large	intestine
34	chr10:99345000-99345400	Enhancers	K562	blood
35	chr10:99345000-99345600	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
36	chr10:99345000-99345600	Enhancers	Brain Anterior Caudate	brain
37	chr10:99345000-99345600	Enhancers	Lung	lung
38	chr10:99345000-99347000	Enhancers	Brain Substantia Nigra	brain
39	chr10:99345000-99347000	Enhancers	A549	lung
40	chr10:99345000-99348600	Weak transcription	Brain Cingulate Gyrus	brain

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links