Variant report

Variant	rs574622761
Chromosome Location	chr19:53106377-53106378
allele	A/C
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	FOS	chr19:53106236-53106590	MCF10A-Er-Src	breast:	n/a	chr19:53106397-53106407 chr19:53106397-53106407 chr19:53106395-53106403
2	STAT3	chr19:53106271-53106533	MCF10A-Er-Src	breast:	n/a	n/a
3	FOS	chr19:53106218-53106581	MCF10A-Er-Src	breast:	n/a	chr19:53106397-53106407 chr19:53106397-53106407 chr19:53106395-53106403
4	STAT3	chr19:53106266-53106570	MCF10A-Er-Src	breast:	n/a	n/a
5	STAT3	chr19:53106272-53106533	MCF10A-Er-Src	breast:	n/a	n/a
6	STAT3	chr19:53106285-53106546	MCF10A-Er-Src	breast:	n/a	n/a
7	FOS	chr19:53106015-53106585	MCF10A-Er-Src	breast:	n/a	chr19:53106397-53106407 chr19:53106397-53106407 chr19:53106395-53106403

No.	Distal block	Cell Line	Cell type
1	chr19:53105509..53107487-chr19:53113900..53115997,2	K562	blood:
2	chr19:53100001..53102540-chr19:53104328..53106583,2	MCF-7	breast:
3	chr19:53105962..53107575-chr19:53107742..53110699,2	MCF-7	breast:
4	chr19:53091479..53093203-chr19:53104357..53107211,2	MCF-7	breast:
5	chr19:53104394..53106484-chr19:53154672..53157186,2	K562	blood:

Variant related genes	Relation type
ENSG00000268970	TF binding region
ENSG00000123870	Chromatin interaction
ENSG00000269825	Chromatin interaction
ENSG00000268970	Chromatin interaction

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

Variant overlapped rSNPs/rCNVs (count:20 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1057296	chr19:52950339-53396986	Weak transcription Active TSS ZNF genes & repeats Strong transcription Enhancers Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	34 gene(s)	inside rSNPs	diseases
2	nsv1065584	chr19:53043126-53127459	Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
3	nsv833874	chr19:53058014-53257875	Weak transcription ZNF genes & repeats Active TSS Enhancers Strong transcription Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	19 gene(s)	inside rSNPs	diseases
4	nsv458743	chr19:53065661-53114267	ZNF genes & repeats Weak transcription Active TSS Flanking Active TSS Strong transcription Enhancers Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	nsv580027	chr19:53065661-53114267	Flanking Active TSS ZNF genes & repeats Weak transcription Strong transcription Active TSS Enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv912304	chr19:53071155-53114267	Flanking Active TSS Weak transcription ZNF genes & repeats Enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
7	nsv912305	chr19:53092465-53349850	Strong transcription ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Enhancers Weak transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	25 gene(s)	inside rSNPs	diseases
8	nsv912306	chr19:53092465-53400760	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Genic enhancers Active TSS 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	31 gene(s)	inside rSNPs	diseases
9	nsv912307	chr19:53092465-53433054	Weak transcription Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Strong transcription Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
10	nsv912308	chr19:53092465-53436337	Enhancers Strong transcription Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
11	nsv912309	chr19:53092465-53440653	Weak transcription Active TSS Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	32 gene(s)	inside rSNPs	diseases
12	nsv912310	chr19:53092465-53451291	Weak transcription Flanking Active TSS Strong transcription Active TSS ZNF genes & repeats Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	33 gene(s)	inside rSNPs	diseases
13	nsv828616	chr19:53095216-53137823	Weak transcription ZNF genes & repeats Active TSS Strong transcription Enhancers Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
14	nsv912311	chr19:53103875-53212361	Weak transcription Enhancers ZNF genes & repeats Strong transcription Genic enhancers Bivalent/Poised TSS Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
15	nsv912312	chr19:53103875-53296371	Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
16	nsv912313	chr19:53103875-53436337	ZNF genes & repeats Weak transcription Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases
17	nsv912314	chr19:53105547-53144082	Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Weak transcription Enhancers Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases
18	nsv912315	chr19:53105547-53149967	Active TSS Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA target site	9 gene(s)	inside rSNPs	diseases
19	nsv912316	chr19:53105547-53158023	Flanking Active TSS Active TSS Strong transcription Enhancers ZNF genes & repeats Weak transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
20	nsv912317	chr19:53105547-53440653	Weak transcription Active TSS Enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	30 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:93 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:53105000-53115800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr19:53105200-53115800	Weak transcription	HUVEC	blood vessel
3	chr19:53105200-53116200	Weak transcription	Left Ventricle	heart
4	chr19:53105200-53116600	Weak transcription	Brain Substantia Nigra	brain
5	chr19:53105200-53120200	Weak transcription	Aorta	Aorta
6	chr19:53105400-53107000	Enhancers	Primary T cells fromperipheralblood	blood
7	chr19:53105400-53108000	Weak transcription	Fetal Stomach	stomach
8	chr19:53105400-53108000	Weak transcription	Sigmoid Colon	Sigmoid Colon
9	chr19:53105400-53114800	Weak transcription	Cortex derived primary cultured neurospheres	brain
10	chr19:53105400-53115600	Weak transcription	HSMM	muscle
11	chr19:53105400-53116000	Weak transcription	Fetal Brain Female	brain
12	chr19:53105400-53116400	Weak transcription	Brain Inferior Temporal Lobe	brain
13	chr19:53105400-53116400	Weak transcription	Ovary	ovary
14	chr19:53105400-53121200	Weak transcription	Fetal Brain Male	brain
15	chr19:53105600-53106400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
16	chr19:53105600-53106400	Enhancers	Thymus	Thymus
17	chr19:53105600-53106600	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr19:53105600-53106600	Weak transcription	Skeletal Muscle Female	skeletal muscle
19	chr19:53105600-53106800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr19:53105600-53107000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
21	chr19:53105600-53107600	Enhancers	Osteobl	bone
22	chr19:53105600-53107800	Weak transcription	Colonic Mucosa	Colon
23	chr19:53105600-53107800	Weak transcription	NHEK	skin
24	chr19:53105600-53108000	Weak transcription	Spleen	Spleen
25	chr19:53105600-53108200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
26	chr19:53105600-53108800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
27	chr19:53105600-53109000	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
28	chr19:53105600-53110600	Weak transcription	Primary hematopoietic stem cells	blood
29	chr19:53105600-53114800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr19:53105600-53115000	Weak transcription	Pancreas	Pancrea
31	chr19:53105600-53115400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr19:53105600-53115400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
33	chr19:53105600-53115400	Weak transcription	Brain Germinal Matrix	brain
34	chr19:53105600-53115600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
35	chr19:53105600-53115600	Weak transcription	Adipose Nuclei	Adipose
36	chr19:53105600-53116200	Weak transcription	Brain Anterior Caudate	brain
37	chr19:53105800-53106600	Weak transcription	Primary hematopoietic stem cells short term culture	blood
38	chr19:53105800-53106600	Weak transcription	Monocytes-CD14+_RO01746	blood
39	chr19:53105800-53106800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr19:53105800-53106800	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr19:53105800-53107200	Enhancers	Primary T helper cells PMA-I stimulated	--
42	chr19:53105800-53107600	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr19:53105800-53107800	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
44	chr19:53105800-53108000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
45	chr19:53105800-53108000	Weak transcription	Fetal Muscle Leg	muscle
46	chr19:53105800-53108800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
47	chr19:53105800-53109000	Weak transcription	HUES6 Cell Line	embryonic stem cell
48	chr19:53105800-53109800	Weak transcription	HUES64 Cell Line	embryonic stem cell
49	chr19:53105800-53110000	Weak transcription	Stomach Mucosa	stomach
50	chr19:53105800-53114600	Weak transcription	Gastric	stomach

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