Variant report

Variant	rs41269015
Chromosome Location	chr9:19103028-19103029
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:19090764..19093304-chr9:19100948..19103618,2	K562	blood:
2	chr9:19102549..19104611-chr9:19380054..19382448,2	K562	blood:
3	chr9:19101429..19104985-chr9:19125580..19131342,7	K562	blood:
4	chr9:19100539..19103049-chr9:19229555..19232279,2	MCF-7	breast:
5	chr9:19102845..19104876-chr9:19230126..19231853,2	MCF-7	breast:
6	chr2:241499902..241500467-chr9:19102795..19103414,2	HCT-116	colon:
7	chr2:201676120..201676947-chr9:19102413..19103031,2	NB4	blood:
8	chr6:26056629..26057130-chr9:19102816..19103401,2	Hela-S3	cervix:
9	chr9:19048660..19050563-chr9:19101012..19103938,3	MCF-7	breast:
10	chr9:19101057..19103224-chr9:19126510..19128425,2	MCF-7	breast:
11	chr9:19101585..19104581-chr9:19376208..19378987,2	K562	blood:
12	chr9:19100757..19103077-chr9:19112817..19114511,2	MCF-7	breast:
13	chr9:19062844..19065435-chr9:19102466..19104748,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000137154	Chromatin interaction
ENSG00000144504	Chromatin interaction
ENSG00000188542	Chromatin interaction
ENSG00000147872	Chromatin interaction
ENSG00000187837	Chromatin interaction
ENSG00000251733	Chromatin interaction
ENSG00000137145	Chromatin interaction
ENSG00000230408	Chromatin interaction
ENSG00000082153	Chromatin interaction
ENSG00000147874	Chromatin interaction
ENSG00000155876	Chromatin interaction

Extended variants
information (count: 65 )
Associated
traits (count: 0)

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

rs_ID	r²[population]
rs11787990	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11788588	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11788977	0.83[AMR][1000 genomes]
rs11789469	1.00[AMR][1000 genomes]
rs11790182	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11791226	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11791674	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11791698	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs11792293	1.00[AFR][1000 genomes]
rs11793228	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs11793687	1.00[AMR][1000 genomes]
rs11795205	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs11795374	1.00[AMR][1000 genomes]
rs2229536	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs35004770	1.00[AMR][1000 genomes]
rs35568725	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs41269003	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41303687	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs41316035	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56310265	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs67330394	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72696445	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72696446	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72696447	0.83[AMR][1000 genomes]
rs72696449	1.00[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs72696450	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696453	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696455	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696456	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696458	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696459	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696462	0.83[AMR][1000 genomes]
rs72696463	1.00[AMR][1000 genomes]
rs72696465	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696469	0.83[AMR][1000 genomes]
rs72696470	1.00[AMR][1000 genomes]
rs72696479	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696480	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696481	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696482	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696485	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696487	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696488	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696489	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696491	1.00[AMR][1000 genomes]
rs72696494	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs72696499	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72696500	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72696501	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72696502	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72698303	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72698305	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72698306	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs72698310	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72698311	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs72698312	1.00[AMR][1000 genomes];0.92[EUR][1000 genomes]
rs72698318	1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:8 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1017820	chr9:18882219-19587377	Strong transcription Weak transcription Enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
2	nsv540078	chr9:18882219-19587377	Genic enhancers Transcr. at gene 5' and 3' Enhancers Weak transcription Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	94 gene(s)	inside rSNPs	diseases
3	nsv892700	chr9:18979441-19156784	Enhancers Flanking Active TSS Active TSS Strong transcription Genic enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
4	nsv1028623	chr9:19034742-19394712	Strong transcription Flanking Active TSS Enhancers Weak transcription Transcr. at gene 5' and 3' ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
5	nsv540079	chr9:19034742-19394712	Weak transcription Strong transcription Flanking Active TSS Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	90 gene(s)	inside rSNPs	diseases
6	nsv430003	chr9:19074740-19247826	Strong transcription Enhancers Flanking Active TSS Genic enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	23 gene(s)	inside rSNPs	diseases
7	nsv870340	chr9:19077714-19143230	Genic enhancers Weak transcription Transcr. at gene 5' and 3' Strong transcription Active TSS Enhancers Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
8	nsv1018947	chr9:19094894-19394712	Weak transcription Enhancers Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	81 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:19100800-19103400	Active TSS	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
2	chr9:19100800-19103400	Active TSS	iPS-20b Cell Line	embryonic stem cell
3	chr9:19101000-19103200	Active TSS	iPS-15b Cell Line	embryonic stem cell
4	chr9:19101000-19103200	Active TSS	K562	blood
5	chr9:19101200-19103400	Active TSS	HSMM	muscle
6	chr9:19101200-19103600	Active TSS	HUES48 Cell Line	embryonic stem cell
7	chr9:19101400-19103400	Active TSS	ES-I3 Cell Line	embryonic stem cell
8	chr9:19101400-19103400	Active TSS	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
9	chr9:19101400-19103400	Active TSS	HUES64 Cell Line	embryonic stem cell
10	chr9:19101400-19103400	Active TSS	NHLF	lung
11	chr9:19101400-19103600	Active TSS	Rectal Smooth Muscle	rectum
12	chr9:19101400-19103600	Active TSS	GM12878-XiMat	blood
13	chr9:19101400-19103800	Active TSS	Stomach Smooth Muscle	stomach
14	chr9:19101600-19103200	Active TSS	iPS-18 Cell Line	embryonic stem cell
15	chr9:19101600-19103200	Active TSS	Muscle Satellite Cultured Cells	--
16	chr9:19101600-19103200	Active TSS	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr9:19101600-19103200	Active TSS	Dnd41	blood
18	chr9:19101600-19103200	Active TSS	Hela-S3	cervix
19	chr9:19101600-19103400	Active TSS	H9 Cell Line	embryonic stem cell
20	chr9:19101600-19103400	Active TSS	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
21	chr9:19101600-19103400	Active TSS	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
22	chr9:19101600-19103400	Active TSS	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr9:19101600-19103400	Active TSS	ES-UCSF4 Cell Line	embryonic stem cell
24	chr9:19101600-19103400	Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
25	chr9:19101600-19103400	Active TSS	Foreskin Melanocyte Primary Cells skin01	Skin
26	chr9:19101600-19103600	Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr9:19101600-19103600	Active TSS	Psoas Muscle	Psoas
28	chr9:19101600-19103600	Active TSS	Right Ventricle	heart
29	chr9:19101600-19103600	Active TSS	A549	lung
30	chr9:19101800-19103200	Active TSS	Fetal Heart	heart
31	chr9:19101800-19103200	Active TSS	Fetal Kidney	kidney
32	chr9:19101800-19103400	Active TSS	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
33	chr9:19101800-19103400	Active TSS	Fetal Intestine Small	intestine
34	chr9:19101800-19103400	Active TSS	NHDF-Ad	bronchial
35	chr9:19101800-19103600	Flanking Active TSS	Primary neutrophils fromperipheralblood	blood
36	chr9:19102000-19103200	Active TSS	Primary T killer memory cells from peripheral blood	blood
37	chr9:19102000-19103200	Active TSS	Cortex derived primary cultured neurospheres	brain
38	chr9:19102000-19103200	Active TSS	Foreskin Fibroblast Primary Cells skin01	Skin
39	chr9:19102000-19103200	Active TSS	Foreskin Melanocyte Primary Cells skin03	Skin
40	chr9:19102000-19103200	Active TSS	HSMMtube	muscle
41	chr9:19102000-19103400	Active TSS	ES-WA7 Cell Line	embryonic stem cell
42	chr9:19102000-19103400	Active TSS	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
43	chr9:19102000-19103400	Active TSS	iPS DF 6.9 Cell Line	embryonic stem cell
44	chr9:19102000-19103400	Active TSS	Breast Myoepithelial Primary Cells	Breast
45	chr9:19102000-19103400	Active TSS	Ganglion Eminence derived primary cultured neurospheres	brain
46	chr9:19102000-19103400	Active TSS	Brain Germinal Matrix	brain
47	chr9:19102000-19103400	Active TSS	Colon Smooth Muscle	Colon
48	chr9:19102000-19103400	Active TSS	Duodenum Smooth Muscle	Duodenum
49	chr9:19102000-19103400	Active TSS	Pancreatic Islets	Pancreatic Islet
50	chr9:19102000-19103400	Active TSS	Ovary	ovary

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