Variant report

Variant	rs17029641
Chromosome Location	chr4:100826304-100826305
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:100824272..100826576-chr4:100827614..100829425,2	K562	blood:
2	chr4:100824278..100827001-chr4:100871760..100873443,2	K562	blood:
3	chr4:100810623..100827791-chr4:100865444..100874425,55	K562	blood:
4	chr4:100820568..100823308-chr4:100824900..100827243,2	K562	blood:

Variant related genes	Relation type
ENSG00000245322	Chromatin interaction
ENSG00000164031	Chromatin interaction
ENSG00000164032	Chromatin interaction

Extended variants
information (count: 49 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:48)

rs_ID	r²[population]
rs10001730	0.94[AFR][1000 genomes];1.00[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10002820	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10014424	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10016741	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs10018937	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs10461176	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[ASN][1000 genomes]
rs1365494	1.00[ASW][hapmap];1.00[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];0.88[YRI][hapmap];0.94[AFR][1000 genomes];0.95[ASN][1000 genomes]
rs17029542	1.00[JPT][hapmap]
rs17029575	0.80[ASN][1000 genomes]
rs17029577	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs17029592	0.87[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.80[ASN][1000 genomes]
rs17029594	0.87[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];0.84[ASN][1000 genomes]
rs17029601	1.00[YRI][hapmap];0.84[AFR][1000 genomes]
rs17029606	1.00[ASW][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[JPT][hapmap];0.88[MEX][hapmap];1.00[YRI][hapmap];0.92[ASN][1000 genomes]
rs17029667	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs17029681	0.91[ASN][1000 genomes]
rs17029696	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];0.91[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17029698	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.93[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17029717	1.00[CEU][hapmap];0.93[CHB][hapmap];1.00[JPT][hapmap];0.87[ASN][1000 genomes]
rs2282587	0.84[AFR][1000 genomes];0.92[ASN][1000 genomes]
rs2298734	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[ASN][1000 genomes]
rs28375729	1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.96[ASN][1000 genomes]
rs28445732	0.84[AFR][1000 genomes];0.93[ASN][1000 genomes]
rs28497573	0.96[ASN][1000 genomes]
rs28553972	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28561548	1.00[ASW][hapmap];1.00[CEU][hapmap];0.93[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs28566137	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs28604943	0.98[ASN][1000 genomes]
rs28635099	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs2866175	1.00[ASW][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs28705829	0.83[ASN][1000 genomes]
rs28709045	0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.83[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28824275	0.94[AFR][1000 genomes];0.98[ASN][1000 genomes]
rs28893880	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3737485	1.00[JPT][hapmap];0.80[ASN][1000 genomes]
rs3775510	0.92[ASN][1000 genomes]
rs4463078	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs57238114	0.92[ASN][1000 genomes]
rs57862852	0.92[ASN][1000 genomes]
rs58512740	0.80[ASN][1000 genomes]
rs59439986	0.84[ASN][1000 genomes]
rs59768994	0.98[ASN][1000 genomes]
rs60203069	0.98[ASN][1000 genomes]
rs60584294	0.80[ASN][1000 genomes]
rs60899666	0.80[ASN][1000 genomes]
rs60994806	0.92[ASN][1000 genomes]
rs61229555	0.91[ASN][1000 genomes]
rs62305048	0.94[AFR][1000 genomes];0.95[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	nsv879661	chr4:100805207-100869635	Weak transcription Flanking Active TSS Enhancers Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region miRNA target site	19 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	chr4:100815600-100840000	Weak transcription	Small Intestine	intestine
2	chr4:100816000-100829600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
3	chr4:100816000-100839800	Weak transcription	Esophagus	oesophagus
4	chr4:100816000-100867000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr4:100816000-100867000	Weak transcription	Lung	lung
6	chr4:100816200-100827000	Weak transcription	Brain Cingulate Gyrus	brain
7	chr4:100816200-100827200	Weak transcription	Brain Hippocampus Middle	brain
8	chr4:100816200-100827400	Weak transcription	K562	blood
9	chr4:100816200-100837600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
10	chr4:100816200-100838000	Weak transcription	Fetal Stomach	stomach
11	chr4:100816200-100838800	Weak transcription	Rectal Smooth Muscle	rectum
12	chr4:100816200-100839800	Weak transcription	Aorta	Aorta
13	chr4:100816200-100840200	Weak transcription	Colonic Mucosa	Colon
14	chr4:100816200-100842200	Weak transcription	Pancreas	Pancrea
15	chr4:100816200-100851400	Weak transcription	A549	lung
16	chr4:100816200-100851600	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr4:100816200-100853600	Weak transcription	NHLF	lung
18	chr4:100816200-100866200	Weak transcription	Placenta Amnion	Placenta Amnion
19	chr4:100816400-100827000	Weak transcription	Fetal Brain Male	brain
20	chr4:100816400-100827000	Weak transcription	Fetal Muscle Trunk	muscle
21	chr4:100816400-100827200	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr4:100816400-100828600	Weak transcription	HepG2	liver
23	chr4:100816400-100830600	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr4:100816400-100837400	Weak transcription	Thymus	Thymus
25	chr4:100816400-100845800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
26	chr4:100816600-100827000	Weak transcription	Brain Germinal Matrix	brain
27	chr4:100816600-100827200	Weak transcription	Colon Smooth Muscle	Colon
28	chr4:100816600-100827400	Weak transcription	Cortex derived primary cultured neurospheres	brain
29	chr4:100816600-100837400	Weak transcription	Fetal Intestine Small	intestine
30	chr4:100816600-100839600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr4:100816600-100839800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr4:100816600-100841800	Weak transcription	Skeletal Muscle Male	skeletal muscle
33	chr4:100816600-100843800	Weak transcription	Right Ventricle	heart
34	chr4:100816800-100826800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
35	chr4:100817800-100836400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
36	chr4:100818600-100831600	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
37	chr4:100819000-100829600	Strong transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
38	chr4:100819000-100831000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
39	chr4:100819000-100838600	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
40	chr4:100819400-100829600	Strong transcription	HMEC	breast
41	chr4:100819600-100829800	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
42	chr4:100819600-100839800	Strong transcription	Monocytes-CD14+_RO01746	blood
43	chr4:100819800-100829800	Strong transcription	HUES48 Cell Line	embryonic stem cell
44	chr4:100820000-100830400	Strong transcription	Rectal Mucosa Donor 29	rectum
45	chr4:100820000-100866200	Weak transcription	Fetal Heart	heart
46	chr4:100820600-100830400	Strong transcription	HUES64 Cell Line	embryonic stem cell
47	chr4:100820600-100834800	Strong transcription	Dnd41	blood
48	chr4:100820600-100838400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
49	chr4:100820800-100830000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
50	chr4:100820800-100830000	Strong transcription	Primary T cells fromperipheralblood	blood

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