Variant report

Variant	rs1141025
Chromosome Location	chr9:5777886-5777887
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:5772411..5774820-chr9:5776618..5778828,2	K562	blood:
2	chr9:5771726..5773900-chr9:5776666..5778706,2	K562	blood:
3	chr9:5776086..5778429-chr9:6006834..6008617,2	K562	blood:

Variant related genes	Relation type
ENSG00000183354	Chromatin interaction
ENSG00000263575	Chromatin interaction

Extended variants
information (count: 33 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:26)

rs_ID	r²[population]
rs10975340	1.00[EUR][1000 genomes]
rs1260128	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1260130	1.00[EUR][1000 genomes]
rs1260132	0.84[AFR][1000 genomes];1.00[EUR][1000 genomes]
rs1260134	0.88[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs1260135	1.00[EUR][1000 genomes]
rs1745887	1.00[EUR][1000 genomes]
rs1745888	0.82[AFR][1000 genomes]
rs1776008	1.00[EUR][1000 genomes]
rs2476262	1.00[EUR][1000 genomes]
rs2760408	1.00[EUR][1000 genomes]
rs2760409	1.00[EUR][1000 genomes]
rs2760410	1.00[EUR][1000 genomes]
rs2797512	1.00[EUR][1000 genomes]
rs2797514	1.00[EUR][1000 genomes]
rs2797516	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs2797517	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes]
rs2797519	1.00[EUR][1000 genomes]
rs58370080	1.00[EUR][1000 genomes]
rs6477001	0.83[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6477002	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7037680	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7042100	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7042539	1.00[AMR][1000 genomes]
rs7046793	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73377834	1.00[EUR][1000 genomes]

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	nsv1017103	chr9:5509431-5987907	Weak transcription Strong transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
2	nsv539965	chr9:5509431-5987907	ZNF genes & repeats Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	31 gene(s)	inside rSNPs	diseases
3	nsv1019444	chr9:5598677-5807009	Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
4	nsv892151	chr9:5602528-5841438	Weak transcription ZNF genes & repeats Strong transcription Flanking Active TSS Enhancers Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
5	nsv948847	chr9:5712626-6417677	Strong transcription Enhancers Weak transcription Flanking Active TSS Active TSS 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 miRNA target site	39 gene(s)	inside rSNPs	diseases
6	esv3331803	chr9:5766129-5905103	Weak transcription Enhancers Bivalent/Poised TSS Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
7	nsv972645	chr9:5776519-5784037	ZNF genes & repeats Weak transcription Strong transcription Enhancers Genic enhancers Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:5719400-5778200	Weak transcription	Stomach Mucosa	stomach
2	chr9:5727200-5778200	Strong transcription	Monocytes-CD14+_RO01746	blood
3	chr9:5728600-5778600	Strong transcription	Primary monocytes fromperipheralblood	blood
4	chr9:5742600-5778400	Strong transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr9:5742800-5778000	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
6	chr9:5749400-5778400	Weak transcription	Fetal Heart	heart
7	chr9:5756000-5778000	Strong transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
8	chr9:5756200-5778200	Strong transcription	Adipose Nuclei	Adipose
9	chr9:5756400-5782000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
10	chr9:5756800-5778600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
11	chr9:5761600-5778000	Strong transcription	Liver	Liver
12	chr9:5761600-5778400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
13	chr9:5761600-5778600	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
14	chr9:5761600-5778600	Strong transcription	Rectal Mucosa Donor 31	rectum
15	chr9:5761800-5778000	Strong transcription	Primary T helper cells fromperipheralblood	blood
16	chr9:5761800-5778400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
17	chr9:5761800-5778600	Strong transcription	Duodenum Mucosa	Duodenum
18	chr9:5761800-5778800	Strong transcription	Primary T cells fromperipheralblood	blood
19	chr9:5762000-5778400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
20	chr9:5762000-5778600	Strong transcription	Primary hematopoietic stem cells short term culture	blood
21	chr9:5762400-5778200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr9:5763200-5778800	Strong transcription	NH-A	brain
23	chr9:5763800-5778200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr9:5763800-5778200	Weak transcription	Pancreatic Islets	Pancreatic Islet
25	chr9:5763800-5778200	Weak transcription	Small Intestine	intestine
26	chr9:5763800-5778600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
27	chr9:5764000-5778400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
28	chr9:5764600-5778000	Strong transcription	Primary B cells from cord blood	blood
29	chr9:5764600-5778000	Strong transcription	Primary B cells from peripheral blood	blood
30	chr9:5764600-5778400	Strong transcription	Primary T cells from cord blood	blood
31	chr9:5765400-5778400	Strong transcription	HMEC	breast
32	chr9:5768800-5778600	Strong transcription	Fetal Thymus	thymus
33	chr9:5769400-5778400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
34	chr9:5772400-5778200	Strong transcription	Primary neutrophils fromperipheralblood	blood
35	chr9:5772400-5778200	Strong transcription	Primary hematopoietic stem cells	blood
36	chr9:5772400-5778400	Strong transcription	Skeletal Muscle Female	skeletal muscle
37	chr9:5772600-5778600	Strong transcription	Ovary	ovary
38	chr9:5773000-5778400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
39	chr9:5773200-5778000	Weak transcription	Fetal Brain Male	brain
40	chr9:5773200-5778400	Weak transcription	Brain Germinal Matrix	brain
41	chr9:5774200-5778400	Strong transcription	Rectal Mucosa Donor 29	rectum
42	chr9:5774400-5778200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
43	chr9:5774400-5778400	Weak transcription	K562	blood
44	chr9:5774400-5778600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
45	chr9:5774400-5778600	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr9:5774400-5778600	Weak transcription	Aorta	Aorta
47	chr9:5774400-5778600	Weak transcription	Esophagus	oesophagus
48	chr9:5774400-5778600	Weak transcription	Fetal Intestine Small	intestine
49	chr9:5774400-5778600	Weak transcription	Rectal Smooth Muscle	rectum
50	chr9:5774800-5778200	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood

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