Variant report

Variant	rs4923889
Chromosome Location	chr15:41234932-41234933
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr15:41233383..41235115-chr15:41239344..41241397,2	MCF-7	breast:
2	chr15:41232489..41235569-chr15:41253295..41255593,3	MCF-7	breast:
3	chr15:40886274..40887836-chr15:41232537..41234993,2	K562	blood:
4	chr15:41232946..41236246-chr15:41262141..41265286,3	MCF-7	breast:
5	chr15:41234066..41235999-chr15:41310279..41312553,2	MCF-7	breast:
6	chr15:41193554..41195434-chr15:41232672..41235208,2	K562	blood:
7	chr15:41196058..41200363-chr15:41232746..41236796,6	MCF-7	breast:
8	chr15:41195653..41200412-chr15:41230792..41235632,4	MCF-7	breast:
9	chr15:41232897..41235509-chr15:41313138..41315009,3	MCF-7	breast:
10	chr15:41231034..41235223-chr15:41248876..41252149,4	MCF-7	breast:
11	chr15:41233061..41238851-chr15:41242514..41246532,9	MCF-7	breast:
12	chr15:41232446..41235218-chr15:41255104..41257063,2	K562	blood:

No data

Variant related genes	Relation type
ENSG00000128965	Chromatin interaction
ENSG00000259405	Chromatin interaction
ENSG00000251161	Chromatin interaction
ENSG00000137812	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 3 )

rSNPs within LD-proxies of this variant (count:5)

rs_ID	r²[population]
rs11557249	0.82[CHD][hapmap]
rs11854054	0.82[JPT][hapmap]
rs3212278	0.84[ASN][1000 genomes]
rs7164358	0.86[ASN][1000 genomes]
rs745299	0.80[CHD][hapmap]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv904101	chr15:40979651-41275014	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	98 gene(s)	inside rSNPs	diseases
2	esv1819092	chr15:41017682-41255750	Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Flanking Active TSS Weak transcription Strong transcription Active TSS Enhancers Bivalent/Poised TSS Bivalent Enhancer Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	83 gene(s)	inside rSNPs	diseases
3	nsv904103	chr15:41123172-41275014	Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Enhancers Flanking Active TSS Weak transcription Flanking Bivalent TSS/Enh Strong transcription Active TSS Bivalent Enhancer ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	60 gene(s)	inside rSNPs	diseases
4	nsv904104	chr15:41149824-41234932	Flanking Active TSS Enhancers Bivalent Enhancer Genic enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	50 gene(s)	inside rSNPs	diseases
5	nsv904105	chr15:41149824-41275014	Flanking Bivalent TSS/Enh Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
6	nsv904106	chr15:41221067-41259523	Enhancers Weak transcription Bivalent Enhancer Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3' Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	35 gene(s)	inside rSNPs	diseases
7	esv3327396	chr15:41232885-41235433	Flanking Active TSS Weak transcription Active TSS Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region	14 gene(s)	inside rSNPs	diseases

mRNA abundance (count:3)

SNP	Gene	Cis/trans	Tissue	Source
rs4923889	RASGRP1	cis	parietal	SCAN
rs4923889	BMF	cis	parietal	SCAN
rs4923889	GPR176	cis	parietal	SCAN

Chromatin state (count:110 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:41232400-41235000	Enhancers	Fetal Brain Male	brain
2	chr15:41232400-41235400	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Female	--
3	chr15:41233200-41235000	Flanking Active TSS	Colonic Mucosa	Colon
4	chr15:41233400-41235000	Flanking Active TSS	Primary hematopoietic stem cells	blood
5	chr15:41233600-41235000	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
6	chr15:41233600-41235000	Active TSS	Right Atrium	heart
7	chr15:41233600-41235000	Active TSS	A549	lung
8	chr15:41233600-41235200	Flanking Active TSS	Primary T regulatory cells fromperipheralblood	blood
9	chr15:41233600-41235800	Flanking Active TSS	Dnd41	blood
10	chr15:41233800-41235000	Flanking Active TSS	Primary hematopoietic stem cells short term culture	blood
11	chr15:41233800-41235000	Active TSS	Small Intestine	intestine
12	chr15:41234200-41235000	Flanking Active TSS	Primary T helper memory cells from peripheral blood 1	blood
13	chr15:41234200-41235200	Flanking Active TSS	Primary B cells from cord blood	blood
14	chr15:41234200-41235400	Enhancers	Fetal Heart	heart
15	chr15:41234200-41235600	Flanking Active TSS	Primary T cells from cord blood	blood
16	chr15:41234400-41235000	Flanking Bivalent TSS/Enh	HUES6 Cell Line	embryonic stem cell
17	chr15:41234400-41235000	Flanking Active TSS	IMR90 fetal lung fibroblasts Cell Line	lung
18	chr15:41234400-41235000	Flanking Bivalent TSS/Enh	iPS-18 Cell Line	embryonic stem cell
19	chr15:41234400-41235000	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
20	chr15:41234400-41235000	Flanking Active TSS	Breast Myoepithelial Primary Cells	Breast
21	chr15:41234400-41235000	Flanking Active TSS	Primary monocytes fromperipheralblood	blood
22	chr15:41234400-41235000	Flanking Active TSS	Primary B cells from peripheral blood	blood
23	chr15:41234400-41235000	Flanking Active TSS	Primary T cells effector/memory enriched fromperipheralblood	blood
24	chr15:41234400-41235000	Flanking Active TSS	Cortex derived primary cultured neurospheres	brain
25	chr15:41234400-41235000	Flanking Bivalent TSS/Enh	Foreskin Keratinocyte Primary Cells skin02	Skin
26	chr15:41234400-41235000	Transcr. at gene 5' and 3'	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr15:41234400-41235000	Flanking Active TSS	Primary mononuclear cells fromperipheralblood	Blood
28	chr15:41234400-41235000	Flanking Active TSS	Brain Angular Gyrus	brain
29	chr15:41234400-41235000	Flanking Active TSS	Brain Cingulate Gyrus	brain
30	chr15:41234400-41235000	Flanking Active TSS	Brain Germinal Matrix	brain
31	chr15:41234400-41235000	Flanking Active TSS	Brain Hippocampus Middle	brain
32	chr15:41234400-41235000	Flanking Active TSS	Brain Substantia Nigra	brain
33	chr15:41234400-41235000	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
34	chr15:41234400-41235000	Flanking Active TSS	Fetal Intestine Small	intestine
35	chr15:41234400-41235000	Flanking Active TSS	Fetal Thymus	thymus
36	chr15:41234400-41235000	Flanking Active TSS	Right Ventricle	heart
37	chr15:41234400-41235000	Flanking Active TSS	Skeletal Muscle Male	skeletal muscle
38	chr15:41234400-41235000	Flanking Bivalent TSS/Enh	HepG2	liver
39	chr15:41234400-41235000	Flanking Active TSS	HSMM	muscle
40	chr15:41234400-41235000	Flanking Active TSS	NHDF-Ad	bronchial
41	chr15:41234400-41235000	Flanking Active TSS	NHEK	skin
42	chr15:41234400-41235000	Flanking Active TSS	NHLF	lung
43	chr15:41234400-41235000	Flanking Active TSS	Osteobl	bone
44	chr15:41234400-41235200	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
45	chr15:41234400-41235200	Flanking Active TSS	Primary T cells fromperipheralblood	blood
46	chr15:41234400-41235200	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
47	chr15:41234400-41235200	Flanking Active TSS	Primary T helper cells fromperipheralblood	blood
48	chr15:41234400-41235200	Flanking Active TSS	Primary Natural Killer cells fromperipheralblood	blood
49	chr15:41234400-41235200	Flanking Active TSS	Primary T killer memory cells from peripheral blood	blood
50	chr15:41234400-41235200	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell

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