Variant report

Variant	rs7875242
Chromosome Location	chr9:86604999-86605000
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	STAT3	chr9:86604740-86605074	MCF10A-Er-Src	breast:	n/a	n/a

Variant related genes	Relation type
ENSG00000202523	TF binding region

Extended variants
information (count: 28 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:25)

rs_ID	r²[population]
rs10124390	0.87[AFR][1000 genomes];0.82[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10125673	0.88[ASN][1000 genomes]
rs10780639	0.88[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10780640	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10868077	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12004439	0.80[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs12551039	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs1572030	0.98[AFR][1000 genomes];0.90[AMR][1000 genomes];0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs177042	0.96[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs296891	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs296892	0.94[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4877814	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs4877815	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs5018100	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs6559753	0.94[AMR][1000 genomes];0.93[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6559754	0.88[AFR][1000 genomes];0.89[AMR][1000 genomes];0.89[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6559756	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs7020841	0.87[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7021189	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7045008	0.88[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs7864367	0.83[AFR][1000 genomes];0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs7875011	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs796000	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs796001	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs796002	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][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	nsv831644	chr9:86534310-86704395	Enhancers Strong transcription Weak transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
2	esv3366490	chr9:86541369-86608868	Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	72 gene(s)	inside rSNPs	diseases
3	nsv893514	chr9:86584160-86678917	Strong transcription Enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	66 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:100 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:86596400-86632400	Weak transcription	Spleen	Spleen
2	chr9:86596600-86610600	Weak transcription	Esophagus	oesophagus
3	chr9:86596600-86613400	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr9:86596600-86613800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
5	chr9:86596600-86616000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr9:86596600-86617000	Weak transcription	Lung	lung
7	chr9:86596600-86618200	Weak transcription	Ovary	ovary
8	chr9:86596600-86619600	Weak transcription	Gastric	stomach
9	chr9:86596800-86605400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
10	chr9:86596800-86606600	Weak transcription	Rectal Smooth Muscle	rectum
11	chr9:86596800-86613200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
12	chr9:86596800-86614400	Weak transcription	HSMMtube	muscle
13	chr9:86596800-86616000	Weak transcription	Brain Hippocampus Middle	brain
14	chr9:86596800-86616200	Weak transcription	Brain Angular Gyrus	brain
15	chr9:86596800-86616200	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr9:86596800-86619600	Weak transcription	Small Intestine	intestine
17	chr9:86596800-86621400	Weak transcription	Brain Inferior Temporal Lobe	brain
18	chr9:86596800-86621600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
19	chr9:86597000-86609600	Weak transcription	Primary T cells from cord blood	blood
20	chr9:86597000-86614200	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr9:86597000-86616000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
22	chr9:86597000-86616000	Weak transcription	Fetal Lung	lung
23	chr9:86597000-86617200	Weak transcription	Primary T helper cells fromperipheralblood	blood
24	chr9:86597000-86621200	Weak transcription	Stomach Smooth Muscle	stomach
25	chr9:86597000-86621600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
26	chr9:86597200-86607200	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
27	chr9:86597200-86614200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
28	chr9:86597200-86615400	Weak transcription	NHDF-Ad	bronchial
29	chr9:86597200-86616000	Weak transcription	Fetal Kidney	kidney
30	chr9:86597200-86616800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
31	chr9:86597200-86619000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
32	chr9:86597400-86628800	Weak transcription	Sigmoid Colon	Sigmoid Colon
33	chr9:86597600-86615800	Weak transcription	Fetal Muscle Trunk	muscle
34	chr9:86597800-86610400	Weak transcription	Fetal Brain Male	brain
35	chr9:86598000-86615800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
36	chr9:86598400-86614200	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr9:86598600-86615400	Weak transcription	HUVEC	blood vessel
38	chr9:86598800-86622400	Weak transcription	Brain Germinal Matrix	brain
39	chr9:86602000-86605200	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
40	chr9:86602000-86614400	Weak transcription	Primary B cells from peripheral blood	blood
41	chr9:86602000-86616000	Weak transcription	Primary hematopoietic stem cells	blood
42	chr9:86602000-86616000	Weak transcription	Duodenum Mucosa	Duodenum
43	chr9:86602000-86620800	Weak transcription	NHLF	lung
44	chr9:86602000-86623200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
45	chr9:86602200-86606800	Weak transcription	Stomach Mucosa	stomach
46	chr9:86602200-86607000	Weak transcription	Pancreatic Islets	Pancreatic Islet
47	chr9:86602200-86610600	Weak transcription	Primary neutrophils fromperipheralblood	blood
48	chr9:86602200-86610800	Weak transcription	Fetal Heart	heart
49	chr9:86602200-86616000	Weak transcription	HSMM	muscle
50	chr9:86602200-86617400	Weak transcription	Osteobl	bone

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