Variant report

Variant	rs55738178
Chromosome Location	chr4:107155834-107155835
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	GATA3	chr4:107154776-107156162	SK-N-SH	brain:	n/a	chr4:107154916-107154926 chr4:107154918-107154928 chr4:107154916-107154925 chr4:107155521-107155537 chr4:107154916-107154925 chr4:107154913-107154929
2	GATA3	chr4:107155271-107156153	SK-N-SH	brain:	n/a	chr4:107155521-107155537

Variant related genes	Relation type
TBCK	TF binding region

Extended variants
information (count: 35 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:31)

rs_ID	r²[population]
rs56210891	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56312801	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56907238	0.85[AMR][1000 genomes]
rs57168901	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57240406	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs57675949	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58275655	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs58471267	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59305790	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs59940336	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs60360942	1.00[AMR][1000 genomes]
rs61424243	1.00[AMR][1000 genomes]
rs61621018	0.85[AMR][1000 genomes]
rs72885601	0.85[AMR][1000 genomes]
rs72887233	0.85[AMR][1000 genomes]
rs72889018	0.85[AMR][1000 genomes]
rs72889019	0.85[AMR][1000 genomes]
rs72891628	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891629	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891648	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891651	0.97[AFR][1000 genomes];0.87[AMR][1000 genomes]
rs72891658	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891670	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72891687	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72968424	1.00[AMR][1000 genomes]
rs72968427	0.91[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72968437	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72968445	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73838137	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73838146	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs7676600	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv879701	chr4:107024776-107163128	ZNF genes & repeats Strong transcription Weak transcription Enhancers Genic enhancers Active TSS Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
2	nsv879702	chr4:107065718-107175191	Enhancers Strong transcription Weak transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv879703	chr4:107082926-107163128	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
4	nsv879704	chr4:107095901-107212966	Enhancers Strong transcription Weak transcription ZNF genes & repeats Active TSS Genic enhancers Flanking Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:111 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:107071800-107176400	Weak transcription	Rectal Smooth Muscle	rectum
2	chr4:107083200-107173400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
3	chr4:107083800-107164800	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
4	chr4:107085400-107169600	Weak transcription	Fetal Kidney	kidney
5	chr4:107088400-107166400	Weak transcription	K562	blood
6	chr4:107105000-107169600	Weak transcription	Fetal Brain Female	brain
7	chr4:107106800-107176400	Weak transcription	Brain Cingulate Gyrus	brain
8	chr4:107111800-107160200	Weak transcription	NHEK	skin
9	chr4:107112400-107170400	Weak transcription	Thymus	Thymus
10	chr4:107114600-107236000	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
11	chr4:107114800-107170400	Weak transcription	Brain Inferior Temporal Lobe	brain
12	chr4:107115000-107176400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
13	chr4:107116800-107193800	Weak transcription	Small Intestine	intestine
14	chr4:107128200-107176400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
15	chr4:107128400-107176400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
16	chr4:107130000-107181200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
17	chr4:107130200-107164800	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr4:107130200-107164800	Weak transcription	Ovary	ovary
19	chr4:107130200-107176400	Weak transcription	Esophagus	oesophagus
20	chr4:107130200-107176400	Weak transcription	Fetal Stomach	stomach
21	chr4:107130200-107176400	Weak transcription	Lung	lung
22	chr4:107130200-107176600	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr4:107130400-107176400	Weak transcription	Pancreas	Pancrea
24	chr4:107130600-107176400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
25	chr4:107141600-107176400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
26	chr4:107141600-107176400	Weak transcription	Aorta	Aorta
27	chr4:107141600-107214800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
28	chr4:107142400-107195800	Weak transcription	Psoas Muscle	Psoas
29	chr4:107144000-107176400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr4:107144600-107172000	Weak transcription	H1 Cell Line	embryonic stem cell
31	chr4:107144800-107170400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
32	chr4:107144800-107179600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
33	chr4:107145200-107170200	Weak transcription	NHLF	lung
34	chr4:107145600-107167400	Weak transcription	Brain Germinal Matrix	brain
35	chr4:107145800-107177400	Weak transcription	Colonic Mucosa	Colon
36	chr4:107146400-107176400	Weak transcription	Right Ventricle	heart
37	chr4:107147200-107158000	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
38	chr4:107147400-107160000	Weak transcription	Fetal Intestine Small	intestine
39	chr4:107147400-107164800	Weak transcription	Left Ventricle	heart
40	chr4:107148000-107157400	Strong transcription	HSMM	muscle
41	chr4:107148000-107157800	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
42	chr4:107148200-107157800	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr4:107148200-107179600	Weak transcription	NH-A	brain
44	chr4:107149200-107156400	Strong transcription	Placenta	Placenta
45	chr4:107149200-107157000	Strong transcription	Primary B cells from cord blood	blood
46	chr4:107149400-107156000	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr4:107149400-107157800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr4:107149600-107156600	Strong transcription	Liver	Liver
49	chr4:107149600-107156600	Strong transcription	Fetal Thymus	thymus
50	chr4:107149600-107156800	Strong transcription	Primary B cells from peripheral blood	blood

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