Variant report

Variant	rs61742322
Chromosome Location	chr15:92451905-92451906
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr15:92444828..92447564-chr15:92450425..92452745,2	MCF-7	breast:
2	chr15:92446607..92448986-chr15:92451828..92454199,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ST8SIA2-2	chr15:92451732-92451989	NONHSAT048510

Extended variants
information (count: 60 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs11853482	0.87[EUR][1000 genomes]
rs17596562	1.00[AFR][1000 genomes]
rs4078179	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4561447	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55638463	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55653850	1.00[AFR][1000 genomes]
rs55761412	1.00[AFR][1000 genomes]
rs55767000	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55771916	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs55772252	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55792858	0.92[EUR][1000 genomes]
rs55829293	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs55879752	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55888073	1.00[AFR][1000 genomes]
rs55908621	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55919613	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs55934923	1.00[AFR][1000 genomes]
rs56040702	1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56079643	0.89[AMR][1000 genomes]
rs56079731	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56168257	1.00[AFR][1000 genomes]
rs56277940	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs56292826	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56358895	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56388730	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56880057	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs60495981	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs7165108	0.84[EUR][1000 genomes]
rs72750051	0.89[AMR][1000 genomes]
rs72750053	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs72750054	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes]
rs72750059	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750064	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750065	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750067	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750072	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750075	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750081	1.00[AFR][1000 genomes];0.92[AMR][1000 genomes];0.89[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750089	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750091	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750094	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750095	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750097	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750100	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72750101	0.92[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72751903	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72751904	0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72751905	0.97[EUR][1000 genomes]
rs72751967	0.80[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs72751974	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72751975	0.92[EUR][1000 genomes]
rs72751979	0.80[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72754094	1.00[AFR][1000 genomes]
rs72755606	1.00[AFR][1000 genomes]
rs72755608	1.00[AFR][1000 genomes]
rs72755613	1.00[AFR][1000 genomes]
rs72755617	1.00[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1048635	chr15:92073294-92557339	Weak transcription Genic enhancers Flanking Active TSS Enhancers Strong transcription Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
2	nsv870094	chr15:92367354-92631647	Flanking Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
3	nsv534110	chr15:92397220-92592961	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:92433000-92458400	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
2	chr15:92438000-92459000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
3	chr15:92438800-92455200	Weak transcription	Primary neutrophils fromperipheralblood	blood
4	chr15:92439000-92453600	Weak transcription	Primary monocytes fromperipheralblood	blood
5	chr15:92442600-92454200	Weak transcription	Lung	lung
6	chr15:92443600-92454000	Weak transcription	Brain Hippocampus Middle	brain
7	chr15:92445600-92460000	Weak transcription	Primary T cells from cord blood	blood
8	chr15:92445800-92452600	Weak transcription	Brain Anterior Caudate	brain
9	chr15:92445800-92462000	Weak transcription	Aorta	Aorta
10	chr15:92446000-92455200	Weak transcription	Primary T helper cells PMA-I stimulated	--
11	chr15:92446000-92464200	Weak transcription	Primary hematopoietic stem cells	blood
12	chr15:92446200-92453000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
13	chr15:92446400-92455200	Weak transcription	Primary hematopoietic stem cells short term culture	blood
14	chr15:92446600-92458400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
15	chr15:92446800-92452600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
16	chr15:92446800-92462200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
17	chr15:92446800-92465000	Weak transcription	Fetal Stomach	stomach
18	chr15:92447400-92452600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr15:92447400-92459600	Weak transcription	Primary T cells fromperipheralblood	blood
20	chr15:92447600-92452600	Weak transcription	Monocytes-CD14+_RO01746	blood
21	chr15:92447800-92454000	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
22	chr15:92448000-92453000	Weak transcription	Left Ventricle	heart
23	chr15:92448000-92457000	Weak transcription	Ovary	ovary
24	chr15:92448000-92459600	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
25	chr15:92448000-92460800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr15:92448400-92453000	Weak transcription	Sigmoid Colon	Sigmoid Colon
27	chr15:92450400-92454400	Enhancers	Fetal Thymus	thymus
28	chr15:92451000-92452400	Enhancers	NHEK	skin
29	chr15:92451000-92452800	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
30	chr15:92451200-92452000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
31	chr15:92451200-92452000	Enhancers	HMEC	breast
32	chr15:92451200-92452600	Enhancers	Brain Substantia Nigra	brain
33	chr15:92451400-92452000	Enhancers	ES-I3 Cell Line	embryonic stem cell
34	chr15:92451400-92452000	Enhancers	Osteobl	bone
35	chr15:92451400-92455400	Weak transcription	Spleen	Spleen
36	chr15:92451400-92455600	Weak transcription	Esophagus	oesophagus
37	chr15:92451400-92455800	Weak transcription	Right Ventricle	heart
38	chr15:92451600-92453600	Weak transcription	Stomach Smooth Muscle	stomach
39	chr15:92451800-92452600	Weak transcription	Fetal Heart	heart
40	chr15:92451800-92453000	Weak transcription	Brain Inferior Temporal Lobe	brain
41	chr15:92451800-92453600	Weak transcription	Adipose Nuclei	Adipose
42	chr15:92451800-92453600	Weak transcription	Right Atrium	heart
43	chr15:92451800-92455400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr15:92451800-92456400	Weak transcription	Hela-S3	cervix
45	chr15:92451800-92460600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
46	chr15:92451800-92461000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
47	chr15:92451800-92461600	Weak transcription	Brain Cingulate Gyrus	brain
48	chr15:92451800-92470200	Weak transcription	Small Intestine	intestine

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