Variant report

Variant	rs13234504
Chromosome Location	chr7:56169135-56169136
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr7:56166954..56169953-chr7:56173700..56175335,2	MCF-7	breast:
2	chr7:56158331..56162402-chr7:56164304..56169225,5	K562	blood:
3	chr7:56128361..56131760-chr7:56167519..56170434,3	K562	blood:

Variant related genes	Relation type
ENSG00000106153	Chromatin interaction
ENSG00000129103	Chromatin interaction
ENSG00000164776	Chromatin interaction
ENSG00000146731	Chromatin interaction

Extended variants
information (count: 67 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:55)

rs_ID	r²[population]
rs10085802	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10253539	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10253680	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12555	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13223519	0.82[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13229704	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13232704	0.80[EUR][1000 genomes]
rs13233037	0.80[EUR][1000 genomes]
rs13233834	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13238029	1.00[EUR][1000 genomes]
rs13238083	0.80[EUR][1000 genomes]
rs13240361	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13241531	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13247558	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17151447	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2013197	0.89[AMR][1000 genomes];0.81[ASN][1000 genomes]
rs2304375	0.85[ASN][1000 genomes]
rs2331184	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs33922584	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34023503	1.00[AFR][1000 genomes];0.91[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs34154824	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34319969	1.00[ASN][1000 genomes]
rs34334997	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34573211	0.96[EUR][1000 genomes]
rs34822782	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35007015	1.00[AFR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35033933	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35058595	1.00[AFR][1000 genomes];0.83[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35102507	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs35136814	0.92[ASN][1000 genomes]
rs35347055	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35506072	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35515485	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35523043	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35581685	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35818005	1.00[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs35881493	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36044787	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36049923	1.00[ASN][1000 genomes]
rs36148650	1.00[AFR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3778868	1.00[ASN][1000 genomes]
rs4947531	0.82[ASN][1000 genomes]
rs4948089	0.82[ASN][1000 genomes]
rs4948101	0.92[ASN][1000 genomes]
rs71543774	0.80[EUR][1000 genomes]
rs71543775	0.92[ASN][1000 genomes]
rs71543776	0.89[ASN][1000 genomes]
rs71543777	0.92[ASN][1000 genomes]
rs71543786	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73126344	1.00[AFR][1000 genomes];1.00[ASN][1000 genomes]
rs816219	0.83[ASN][1000 genomes]
rs816242	0.96[ASN][1000 genomes]
rs816412	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs816413	1.00[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs816415	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:12 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv2829874	chr7:55382925-56369816	Strong transcription Enhancers Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Weak transcription ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	nsv995105	chr7:55606107-56174888	Active TSS ZNF genes & repeats Weak transcription Strong transcription Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	76 gene(s)	inside rSNPs	diseases
3	esv12412	chr7:55619800-56385412	Strong transcription Flanking Active TSS Genic enhancers Active TSS Weak transcription Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
4	nsv949574	chr7:55705566-56544711	Active TSS Weak transcription Strong transcription Genic enhancers Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	84 gene(s)	inside rSNPs	diseases
5	esv3446617	chr7:55745934-56485903	Enhancers Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Weak transcription Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
6	nsv529162	chr7:55800753-56174888	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	64 gene(s)	inside rSNPs	diseases
7	esv2761334	chr7:55823581-56424739	Weak transcription Flanking Active TSS Active TSS Strong transcription Enhancers Genic enhancers ZNF genes & repeats Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	71 gene(s)	inside rSNPs	diseases
8	nsv1018806	chr7:55844931-56383936	Active TSS Enhancers Genic enhancers Flanking Active TSS Weak transcription Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
9	nsv538860	chr7:55844931-56383936	Enhancers Active TSS Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	68 gene(s)	inside rSNPs	diseases
10	nsv498114	chr7:55872850-56174888	Weak transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	59 gene(s)	inside rSNPs	diseases
11	nsv1034712	chr7:56146885-56605592	Active TSS Enhancers Weak transcription Genic enhancers ZNF genes & repeats Flanking Active TSS Strong transcription Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases
12	nsv538861	chr7:56146885-56605592	Bivalent/Poised TSS Active TSS Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	31 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:56147400-56169800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
2	chr7:56158200-56173200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
3	chr7:56160800-56170400	Weak transcription	Fetal Brain Male	brain
4	chr7:56161000-56173000	Weak transcription	Fetal Heart	heart
5	chr7:56161200-56169600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
6	chr7:56161200-56173000	Weak transcription	Right Atrium	heart
7	chr7:56164000-56172800	Strong transcription	Fetal Stomach	stomach
8	chr7:56164200-56171600	Strong transcription	Breast Myoepithelial Primary Cells	Breast
9	chr7:56164200-56172000	Strong transcription	Primary neutrophils fromperipheralblood	blood
10	chr7:56164200-56172600	Strong transcription	Fetal Intestine Small	intestine
11	chr7:56165000-56172200	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr7:56165200-56172000	Strong transcription	Fetal Brain Female	brain
13	chr7:56165200-56172800	Strong transcription	Thymus	Thymus
14	chr7:56165400-56171400	Strong transcription	Primary T helper cells PMA-I stimulated	--
15	chr7:56165400-56172000	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
16	chr7:56165400-56172200	Strong transcription	Primary T helper cells fromperipheralblood	blood
17	chr7:56165400-56172200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
18	chr7:56165400-56172400	Strong transcription	Primary hematopoietic stem cells short term culture	blood
19	chr7:56166000-56171800	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
20	chr7:56166200-56172200	Strong transcription	Fetal Intestine Large	intestine
21	chr7:56166200-56172200	Strong transcription	Fetal Thymus	thymus
22	chr7:56166200-56172600	Strong transcription	Fetal Muscle Leg	muscle
23	chr7:56166400-56170400	Weak transcription	Pancreatic Islets	Pancreatic Islet
24	chr7:56166400-56172200	Strong transcription	Primary T regulatory cells fromperipheralblood	blood
25	chr7:56166600-56171200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
26	chr7:56166800-56171600	Strong transcription	Colon Smooth Muscle	Colon
27	chr7:56166800-56171600	Strong transcription	Skeletal Muscle Female	skeletal muscle
28	chr7:56166800-56171800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
29	chr7:56166800-56172000	Strong transcription	Lung	lung
30	chr7:56167000-56171200	Strong transcription	Dnd41	blood
31	chr7:56167000-56171400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr7:56167000-56171800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
33	chr7:56167000-56171800	Strong transcription	Stomach Smooth Muscle	stomach
34	chr7:56167000-56172000	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
35	chr7:56167000-56172000	Strong transcription	Primary B cells from cord blood	blood
36	chr7:56167000-56172000	Strong transcription	Primary T cells from cord blood	blood
37	chr7:56167000-56172000	Strong transcription	Duodenum Mucosa	Duodenum
38	chr7:56167000-56172000	Strong transcription	Duodenum Smooth Muscle	Duodenum
39	chr7:56167000-56172000	Strong transcription	Rectal Mucosa Donor 29	rectum
40	chr7:56167000-56172000	Strong transcription	Skeletal Muscle Male	skeletal muscle
41	chr7:56167000-56172200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr7:56167000-56172200	Strong transcription	Cortex derived primary cultured neurospheres	brain
43	chr7:56167000-56172200	Strong transcription	Ovary	ovary
44	chr7:56167000-56172200	Strong transcription	Monocytes-CD14+_RO01746	blood
45	chr7:56167000-56172600	Strong transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
46	chr7:56167000-56172800	Strong transcription	A549	lung
47	chr7:56167000-56173200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
48	chr7:56167200-56169200	Strong transcription	Brain Anterior Caudate	brain
49	chr7:56167200-56169200	Strong transcription	NHLF	lung
50	chr7:56167200-56170800	Strong transcription	Fetal Kidney	kidney

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