Variant report

Variant	rs55869368
Chromosome Location	chr1:56986633-56986634
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr1:56982104..56984757-chr1:56986509..56989036,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000162407	Chromatin interaction

Extended variants
information (count: 20 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs17114036	0.91[EUR][1000 genomes]
rs17114046	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2404715	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4634932	0.84[AMR][1000 genomes];0.82[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs55694910	0.81[EUR][1000 genomes]
rs56170783	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56186267	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs56322312	0.81[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs56348932	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72664318	0.91[EUR][1000 genomes]
rs72664324	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs72664332	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72664335	1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72664341	0.95[AMR][1000 genomes];0.95[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72664353	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72664354	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72664355	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs72664358	0.82[ASN][1000 genomes]
rs9970807	0.93[EUR][1000 genomes];0.82[ASN][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869295	chr1:56894955-57656562	Weak transcription Strong transcription Genic enhancers Active TSS Flanking Active TSS Bivalent/Poised TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:56967000-57002000	Genic enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
2	chr1:56972400-56990800	Strong transcription	HSMM	muscle
3	chr1:56976400-56991600	Strong transcription	Fetal Stomach	stomach
4	chr1:56976800-56992400	Weak transcription	Brain Germinal Matrix	brain
5	chr1:56977200-56987200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
6	chr1:56977200-56990600	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
7	chr1:56977800-56989200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
8	chr1:56977800-56991200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
9	chr1:56977800-56999200	Weak transcription	A549	lung
10	chr1:56978000-56987200	Weak transcription	Thymus	Thymus
11	chr1:56978000-56987600	Weak transcription	Dnd41	blood
12	chr1:56978000-56987800	Strong transcription	Fetal Muscle Trunk	muscle
13	chr1:56978000-56989200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
14	chr1:56978000-56991400	Weak transcription	Fetal Brain Male	brain
15	chr1:56978000-56992600	Weak transcription	Rectal Smooth Muscle	rectum
16	chr1:56979200-56992600	Strong transcription	HepG2	liver
17	chr1:56980600-56991600	Genic enhancers	Left Ventricle	heart
18	chr1:56981000-56987200	Weak transcription	HSMMtube	muscle
19	chr1:56982000-56989400	Weak transcription	Gastric	stomach
20	chr1:56982200-56987000	Weak transcription	Sigmoid Colon	Sigmoid Colon
21	chr1:56982200-56987800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr1:56982400-56989400	Weak transcription	Esophagus	oesophagus
23	chr1:56982800-56986800	Weak transcription	Fetal Heart	heart
24	chr1:56982800-56987800	Weak transcription	Brain Angular Gyrus	brain
25	chr1:56982800-56987800	Weak transcription	Brain Inferior Temporal Lobe	brain
26	chr1:56983000-56987800	Weak transcription	HUVEC	blood vessel
27	chr1:56983000-56988200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
28	chr1:56983000-56988400	Weak transcription	Primary hematopoietic stem cells	blood
29	chr1:56983000-56990000	Strong transcription	Fetal Muscle Leg	muscle
30	chr1:56983200-56987200	Weak transcription	Brain Cingulate Gyrus	brain
31	chr1:56983200-56989400	Weak transcription	Primary B cells from cord blood	blood
32	chr1:56983200-56991200	Strong transcription	Stomach Smooth Muscle	stomach
33	chr1:56983200-56991400	Strong transcription	Osteobl	bone
34	chr1:56983200-56992400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
35	chr1:56983400-56987800	Weak transcription	Brain Anterior Caudate	brain
36	chr1:56983400-56992200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
37	chr1:56983400-57000800	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
38	chr1:56983600-56987200	Weak transcription	Primary neutrophils fromperipheralblood	blood
39	chr1:56983600-56988400	Weak transcription	Stomach Mucosa	stomach
40	chr1:56983600-56991200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
41	chr1:56983800-56987400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
42	chr1:56983800-56987400	Weak transcription	Rectal Mucosa Donor 31	rectum
43	chr1:56983800-56991000	Strong transcription	Fetal Intestine Large	intestine
44	chr1:56983800-56991200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
45	chr1:56984000-56989400	Weak transcription	NH-A	brain
46	chr1:56984000-56990600	Weak transcription	Small Intestine	intestine
47	chr1:56984200-56987400	Strong transcription	Fetal Intestine Small	intestine
48	chr1:56984200-56987400	Weak transcription	Psoas Muscle	Psoas
49	chr1:56984200-56988400	Weak transcription	Spleen	Spleen
50	chr1:56984200-56988600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland

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