Variant report

Variant	rs6561464
Chromosome Location	chr13:49155223-49155224
allele	C/T
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	STAT3	chr13:49155085-49155358	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
LINC00462	TF binding region

Extended variants
information (count: 11 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs4151636	1.00[ASN][1000 genomes]
rs6420296	1.00[ASN][1000 genomes]
rs6561462	0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7997110	0.89[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832602	chr13:49003159-49167781	Active TSS Enhancers Flanking Active TSS Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv1041275	chr13:49045566-49242357	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer 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	14 gene(s)	inside rSNPs	diseases
3	nsv541769	chr13:49045566-49242357	Flanking Active TSS Enhancers Weak transcription Bivalent Enhancer Genic enhancers Active TSS Strong transcription ZNF genes & repeats 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	14 gene(s)	inside rSNPs	diseases
4	nsv832604	chr13:49061081-49281807	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
5	nsv1049117	chr13:49089476-49928945	Enhancers Strong transcription Weak transcription Genic enhancers Active TSS Bivalent Enhancer Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	42 gene(s)	inside rSNPs	diseases
6	nsv455881	chr13:49134412-49169570	Weak transcription Enhancers Flanking Active TSS Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
7	nsv561591	chr13:49134412-49169570	Weak transcription Active TSS Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:55 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:49146800-49157400	Weak transcription	HSMMtube	muscle
2	chr13:49147600-49160800	Weak transcription	Thymus	Thymus
3	chr13:49148400-49158400	Weak transcription	Skeletal Muscle Male	skeletal muscle
4	chr13:49148400-49159000	Weak transcription	Pancreas	Pancrea
5	chr13:49148400-49160600	Weak transcription	Fetal Muscle Trunk	muscle
6	chr13:49148800-49157800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
7	chr13:49150600-49159400	Enhancers	Breast Myoepithelial Primary Cells	Breast
8	chr13:49152600-49155400	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
9	chr13:49152800-49155400	Enhancers	HMEC	breast
10	chr13:49153400-49158200	Weak transcription	Fetal Lung	lung
11	chr13:49154000-49155400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr13:49154000-49156800	Enhancers	GM12878-XiMat	blood
13	chr13:49154000-49158000	Weak transcription	Fetal Muscle Leg	muscle
14	chr13:49154000-49158800	Weak transcription	Right Atrium	heart
15	chr13:49154000-49159000	Weak transcription	Colonic Mucosa	Colon
16	chr13:49154000-49159000	Weak transcription	Esophagus	oesophagus
17	chr13:49154000-49159000	Weak transcription	Left Ventricle	heart
18	chr13:49154000-49159000	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr13:49154000-49159000	Weak transcription	Spleen	Spleen
20	chr13:49154000-49159200	Weak transcription	Placenta	Placenta
21	chr13:49154200-49156000	Weak transcription	Fetal Intestine Small	intestine
22	chr13:49154200-49158000	Weak transcription	Adipose Nuclei	Adipose
23	chr13:49154200-49158600	Weak transcription	Duodenum Mucosa	Duodenum
24	chr13:49154200-49159000	Weak transcription	NHEK	skin
25	chr13:49154200-49159400	Weak transcription	Fetal Thymus	thymus
26	chr13:49154200-49160800	Weak transcription	Primary hematopoietic stem cells	blood
27	chr13:49154200-49160800	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr13:49154400-49158800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
29	chr13:49154400-49160200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
30	chr13:49154600-49155400	Enhancers	Osteobl	bone
31	chr13:49154600-49159400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
32	chr13:49154800-49156000	Weak transcription	HSMM	muscle
33	chr13:49154800-49157800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
34	chr13:49154800-49158400	Weak transcription	Brain Inferior Temporal Lobe	brain
35	chr13:49154800-49158800	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr13:49154800-49158800	Weak transcription	Monocytes-CD14+_RO01746	blood
37	chr13:49154800-49159000	Weak transcription	Small Intestine	intestine
38	chr13:49154800-49159400	Weak transcription	HUES64 Cell Line	embryonic stem cell
39	chr13:49154800-49159600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr13:49154800-49160400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
41	chr13:49154800-49160400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
42	chr13:49154800-49160800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
43	chr13:49155000-49156000	Weak transcription	HepG2	liver
44	chr13:49155000-49156200	Weak transcription	Dnd41	blood
45	chr13:49155000-49158000	Weak transcription	Colon Smooth Muscle	Colon
46	chr13:49155000-49158200	Weak transcription	Brain Substantia Nigra	brain
47	chr13:49155000-49158600	Weak transcription	Brain Anterior Caudate	brain
48	chr13:49155000-49158600	Weak transcription	Brain Cingulate Gyrus	brain
49	chr13:49155000-49158600	Weak transcription	Stomach Mucosa	stomach
50	chr13:49155000-49158800	Weak transcription	Primary monocytes fromperipheralblood	blood

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