Variant report

Variant	rs41410847
Chromosome Location	chr4:6957332-6957333
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr4:6957151..6958977-chr4:6961301..6963114,2	K562	blood:
2	chr4:6956864..6959519-chr4:7054883..7056479,2	K562	blood:
3	chr4:6956864..6959792-chr4:7054490..7056479,3	K562	blood:
4	chr4:6910837..6912550-chr4:6955221..6957525,2	MCF-7	breast:
5	chr4:6956929..6959439-chr4:6986571..6988935,2	K562	blood:

Variant related genes	Relation type
ENSG00000173011	Chromatin interaction
ENSG00000132405	Chromatin interaction

Extended variants
information (count: 56 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:54)

rs_ID	r²[population]
rs1048009	1.00[GIH][hapmap];1.00[ASN][1000 genomes]
rs28384174	1.00[ASN][1000 genomes]
rs28729690	1.00[ASN][1000 genomes]
rs55672215	1.00[ASN][1000 genomes]
rs55740475	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55833486	1.00[ASN][1000 genomes]
rs56031152	1.00[ASN][1000 genomes]
rs56081162	1.00[ASN][1000 genomes]
rs56094305	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56178503	1.00[ASN][1000 genomes]
rs56320732	1.00[ASN][1000 genomes]
rs56400338	1.00[ASN][1000 genomes]
rs56903115	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs57454756	0.86[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59683609	1.00[ASN][1000 genomes]
rs59742225	1.00[ASN][1000 genomes]
rs59809420	1.00[ASN][1000 genomes]
rs60048916	1.00[ASN][1000 genomes]
rs66573146	1.00[ASN][1000 genomes]
rs66611116	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66645969	1.00[ASN][1000 genomes]
rs66712119	1.00[ASN][1000 genomes]
rs66734745	0.93[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66808450	0.85[AFR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66819208	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs66905212	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67067921	1.00[ASN][1000 genomes]
rs67245546	0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67252699	0.85[AFR][1000 genomes];0.83[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67315413	1.00[ASN][1000 genomes]
rs67321746	0.81[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67405518	1.00[ASN][1000 genomes]
rs67702333	1.00[ASN][1000 genomes]
rs67750430	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67922134	0.89[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67998004	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs68111914	1.00[ASN][1000 genomes]
rs6812391	1.00[ASN][1000 genomes]
rs6812771	1.00[ASN][1000 genomes]
rs68169399	0.90[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6838042	1.00[ASN][1000 genomes]
rs6838250	1.00[ASN][1000 genomes]
rs6851488	0.88[GIH][hapmap];0.87[LWK][hapmap];0.86[MEX][hapmap];0.89[MKK][hapmap];0.95[YRI][hapmap];1.00[ASN][1000 genomes]
rs6855531	1.00[ASN][1000 genomes]
rs73088528	1.00[ASN][1000 genomes]
rs73088564	1.00[ASN][1000 genomes]
rs73199995	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs73202120	1.00[ASN][1000 genomes]
rs73202122	1.00[ASN][1000 genomes]
rs7668802	1.00[ASN][1000 genomes]
rs7675281	1.00[ASN][1000 genomes]
rs7686168	1.00[ASN][1000 genomes]
rs7686186	1.00[ASN][1000 genomes]
rs9942188	1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv878529	chr4:6883012-6983677	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	30 gene(s)	inside rSNPs	diseases
2	nsv878530	chr4:6888932-7058473	Strong transcription Enhancers Weak transcription Genic enhancers Bivalent Enhancer Flanking Active TSS Transcr. at gene 5' and 3' Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:101 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:6928000-6969600	Weak transcription	Aorta	Aorta
2	chr4:6945000-6970200	Weak transcription	Hela-S3	cervix
3	chr4:6945800-6965800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
4	chr4:6946600-6969000	Weak transcription	Dnd41	blood
5	chr4:6948600-6962400	Weak transcription	Primary neutrophils fromperipheralblood	blood
6	chr4:6950400-6963800	Weak transcription	Small Intestine	intestine
7	chr4:6953600-6960600	Enhancers	Fetal Thymus	thymus
8	chr4:6953800-6960000	Enhancers	Placenta	Placenta
9	chr4:6954000-6957600	Enhancers	Cortex derived primary cultured neurospheres	brain
10	chr4:6954000-6964000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr4:6954200-6957800	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
12	chr4:6954200-6958000	Weak transcription	Thymus	Thymus
13	chr4:6954200-6958800	Weak transcription	Primary T cells from cord blood	blood
14	chr4:6954400-6957800	Weak transcription	Monocytes-CD14+_RO01746	blood
15	chr4:6954400-6965800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
16	chr4:6954600-6957800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
17	chr4:6954600-6958000	Weak transcription	Primary T helper cells PMA-I stimulated	--
18	chr4:6954600-6958200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
19	chr4:6954600-6958200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr4:6954600-6958400	Weak transcription	Primary B cells from peripheral blood	blood
21	chr4:6954600-6958400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr4:6954600-6958400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
23	chr4:6954800-6962800	Weak transcription	Primary monocytes fromperipheralblood	blood
24	chr4:6955000-6962600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr4:6955200-6957800	Enhancers	Primary T cells fromperipheralblood	blood
26	chr4:6955400-6957400	Enhancers	iPS-15b Cell Line	embryonic stem cell
27	chr4:6955400-6957400	Enhancers	iPS-20b Cell Line	embryonic stem cell
28	chr4:6955400-6957600	Enhancers	HUES6 Cell Line	embryonic stem cell
29	chr4:6955400-6957600	Enhancers	Brain Hippocampus Middle	brain
30	chr4:6955400-6957600	Enhancers	Stomach Mucosa	stomach
31	chr4:6955400-6957800	Enhancers	H1 Cell Line	embryonic stem cell
32	chr4:6955400-6958000	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr4:6955400-6958400	Enhancers	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr4:6955400-6958400	Enhancers	Fetal Intestine Large	intestine
35	chr4:6955400-6959000	Genic enhancers	Fetal Intestine Small	intestine
36	chr4:6955400-6959200	Enhancers	HepG2	liver
37	chr4:6955400-6960000	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
38	chr4:6955600-6957600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr4:6955600-6957600	Enhancers	Placenta Amnion	Placenta Amnion
40	chr4:6955600-6958800	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
41	chr4:6955600-6961800	Enhancers	Pancreas	Pancrea
42	chr4:6955800-6957600	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
43	chr4:6955800-6957600	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
44	chr4:6955800-6957800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr4:6955800-6958200	Weak transcription	Sigmoid Colon	Sigmoid Colon
46	chr4:6955800-6958600	Weak transcription	Liver	Liver
47	chr4:6955800-6976000	Weak transcription	Rectal Smooth Muscle	rectum
48	chr4:6956000-6957400	Enhancers	ES-I3 Cell Line	embryonic stem cell
49	chr4:6956000-6957400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
50	chr4:6956000-6957400	Enhancers	Brain Angular Gyrus	brain

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