Variant report

Variant	rs61828148
Chromosome Location	chr1:174925035-174925036
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:174923792..174926016-chr1:174927596..174930266,2	MCF-7	breast:
2	chr1:174923198..174925384-chr1:174966768..174969238,3	K562	blood:
3	chr1:174908320..174910168-chr1:174924231..174926585,2	K562	blood:

Variant related genes	Relation type
ENSG00000116161	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:34)

rs_ID	r²[population]
rs1002125	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10489333	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10912849	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10912850	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs10912870	0.82[ASN][1000 genomes]
rs12065854	0.85[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs12066247	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12068637	0.82[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12074821	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs12087196	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs12087589	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12562194	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12565944	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12566477	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs16847450	0.81[AMR][1000 genomes]
rs16847563	0.84[AMR][1000 genomes]
rs16847633	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs16847706	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.90[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2285209	0.86[AFR][1000 genomes];0.93[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs28660133	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs41266068	0.86[AFR][1000 genomes];0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs41266072	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs57366106	0.82[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs61828087	0.81[AMR][1000 genomes]
rs61828088	0.81[AMR][1000 genomes]
rs61828117	0.90[AMR][1000 genomes]
rs61828121	0.87[AMR][1000 genomes];0.80[EUR][1000 genomes]
rs61828143	0.93[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61828144	0.90[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs61828149	0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61828151	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61828152	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs61828156	0.82[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs61828157	0.87[AMR][1000 genomes];0.92[EUR][1000 genomes];0.96[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	esv2755184	chr1:174388343-174970343	Flanking Active TSS Weak transcription Enhancers Strong transcription Transcr. at gene 5' and 3' Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	54 gene(s)	inside rSNPs	diseases
2	esv1794782	chr1:174900761-174925112	Enhancers Flanking Active TSS Weak transcription Active TSS Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:67 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:174874200-174938200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr1:174876800-174933600	Weak transcription	Aorta	Aorta
3	chr1:174908000-174926600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
4	chr1:174908000-174932400	Weak transcription	Primary T cells fromperipheralblood	blood
5	chr1:174908600-174927400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
6	chr1:174908800-174932200	Weak transcription	Primary T cells from cord blood	blood
7	chr1:174910400-174932400	Weak transcription	HSMMtube	muscle
8	chr1:174910800-174925800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
9	chr1:174910800-174957000	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
10	chr1:174912200-174925400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr1:174912600-174934800	Weak transcription	Left Ventricle	heart
12	chr1:174914800-174932800	Weak transcription	Placenta Amnion	Placenta Amnion
13	chr1:174919200-174926600	Enhancers	Fetal Intestine Large	intestine
14	chr1:174920800-174926200	Weak transcription	H1 Cell Line	embryonic stem cell
15	chr1:174921200-174925200	Enhancers	Fetal Intestine Small	intestine
16	chr1:174922200-174926600	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr1:174922400-174925400	Enhancers	Primary neutrophils fromperipheralblood	blood
18	chr1:174922800-174927200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
19	chr1:174923000-174925600	Weak transcription	iPS-20b Cell Line	embryonic stem cell
20	chr1:174923000-174926200	Weak transcription	HUES48 Cell Line	embryonic stem cell
21	chr1:174923000-174927600	Weak transcription	Right Atrium	heart
22	chr1:174923000-174933600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
23	chr1:174923400-174932400	Weak transcription	Fetal Heart	heart
24	chr1:174923600-174925600	Enhancers	Brain Inferior Temporal Lobe	brain
25	chr1:174923800-174926200	Weak transcription	HUES64 Cell Line	embryonic stem cell
26	chr1:174923800-174927200	Enhancers	Small Intestine	intestine
27	chr1:174924000-174926400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
28	chr1:174924000-174927600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
29	chr1:174924000-174932200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
30	chr1:174924000-174932400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
31	chr1:174924000-174933400	Weak transcription	Ovary	ovary
32	chr1:174924000-174933800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
33	chr1:174924000-174938200	Weak transcription	Psoas Muscle	Psoas
34	chr1:174924200-174967800	Weak transcription	Brain Germinal Matrix	brain
35	chr1:174924400-174926200	Weak transcription	Primary T helper cells fromperipheralblood	blood
36	chr1:174924400-174926400	Weak transcription	HUES6 Cell Line	embryonic stem cell
37	chr1:174924400-174926400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr1:174924400-174926600	Weak transcription	Duodenum Mucosa	Duodenum
39	chr1:174924400-174926800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
40	chr1:174924400-174927000	Weak transcription	Brain Anterior Caudate	brain
41	chr1:174924400-174932400	Weak transcription	Fetal Stomach	stomach
42	chr1:174924400-174933600	Weak transcription	Fetal Kidney	kidney
43	chr1:174924400-174958200	Weak transcription	Fetal Brain Male	brain
44	chr1:174924600-174925600	Enhancers	Pancreatic Islets	Pancreatic Islet
45	chr1:174924600-174926200	Weak transcription	Primary T helper cells PMA-I stimulated	--
46	chr1:174924600-174926400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
47	chr1:174924600-174926400	Weak transcription	Liver	Liver
48	chr1:174924600-174926400	Weak transcription	Rectal Mucosa Donor 29	rectum
49	chr1:174924600-174926600	Weak transcription	Primary B cells from peripheral blood	blood
50	chr1:174924600-174926600	Weak transcription	Brain Substantia Nigra	brain

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