Variant report

Variant	rs2236405
Chromosome Location	chr9:98211572-98211573
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:98202143..98207025-chr9:98207845..98211987,5	K562	blood:
2	chr9:98210232..98214386-chr9:98264282..98269915,4	K562	blood:
3	chr9:98210481..98212145-chr9:98266993..98269582,2	K562	blood:
4	chr9:98187259..98193172-chr9:98208629..98217669,12	MCF-7	breast:

Variant related genes	Relation type
ENSG00000271155	Chromatin interaction
ENSG00000237857	Chromatin interaction
ENSG00000185920	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:8)

rs_ID	r²[population]
rs16905572	0.91[CHB][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs2066835	0.81[CHB][hapmap];1.00[YRI][hapmap];0.94[AFR][1000 genomes]
rs2274690	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs2277183	1.00[CHB][hapmap];0.90[JPT][hapmap];0.92[ASN][1000 genomes]
rs2277184	0.90[CHB][hapmap];0.90[JPT][hapmap];1.00[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs28413575	0.94[ASN][1000 genomes]
rs28735184	0.87[ASN][1000 genomes]
rs3824487	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv531633	chr9:98078300-98431120	Flanking Active TSS Active TSS Strong transcription Enhancers Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh 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	44 gene(s)	inside rSNPs	diseases
2	nsv831658	chr9:98152971-98342178	Transcr. at gene 5' and 3' Weak transcription Flanking Active TSS Bivalent Enhancer Active TSS Strong transcription Enhancers Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	23 gene(s)	inside rSNPs	diseases
3	nsv949520	chr9:98204199-98238358	Weak transcription Strong transcription Genic enhancers Active TSS ZNF genes & repeats Flanking Active TSS Enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
4	nsv430083	chr9:98204245-98445645	Weak transcription Active TSS Enhancers Strong transcription Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
5	nsv1053762	chr9:98208542-98232120	Strong transcription Enhancers Weak transcription Flanking Active TSS Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats	TF binding region CpG island Chromatin interactive region miRNA target site	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:98200800-98211800	Weak transcription	Fetal Brain Male	brain
2	chr9:98202000-98224600	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr9:98204400-98220400	Strong transcription	Fetal Intestine Large	intestine
4	chr9:98204600-98212800	Strong transcription	Fetal Lung	lung
5	chr9:98204600-98214400	Weak transcription	Osteobl	bone
6	chr9:98204800-98224400	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
7	chr9:98205200-98218000	Weak transcription	Small Intestine	intestine
8	chr9:98205600-98212600	Weak transcription	Colon Smooth Muscle	Colon
9	chr9:98206000-98216000	Weak transcription	Primary T cells from cord blood	blood
10	chr9:98206000-98224400	Weak transcription	HUVEC	blood vessel
11	chr9:98206000-98237600	Weak transcription	Psoas Muscle	Psoas
12	chr9:98206200-98221400	Strong transcription	Fetal Intestine Small	intestine
13	chr9:98206400-98217600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
14	chr9:98206400-98218400	Weak transcription	NHEK	skin
15	chr9:98206600-98212400	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
16	chr9:98206600-98212600	Strong transcription	Brain Inferior Temporal Lobe	brain
17	chr9:98206600-98213200	Strong transcription	Lung	lung
18	chr9:98206600-98217200	Strong transcription	Liver	Liver
19	chr9:98206600-98220200	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
20	chr9:98206600-98220200	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
21	chr9:98206600-98220400	Strong transcription	Duodenum Mucosa	Duodenum
22	chr9:98206600-98221200	Strong transcription	Brain Hippocampus Middle	brain
23	chr9:98206600-98223000	Strong transcription	Sigmoid Colon	Sigmoid Colon
24	chr9:98206600-98224000	Strong transcription	Adipose Nuclei	Adipose
25	chr9:98206600-98224600	Strong transcription	Aorta	Aorta
26	chr9:98206600-98225200	Strong transcription	Pancreas	Pancrea
27	chr9:98206800-98212200	Strong transcription	NHLF	lung
28	chr9:98206800-98212400	Strong transcription	Esophagus	oesophagus
29	chr9:98206800-98212800	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
30	chr9:98206800-98214600	Strong transcription	Foreskin Melanocyte Primary Cells skin01	Skin
31	chr9:98206800-98215800	Weak transcription	Stomach Mucosa	stomach
32	chr9:98206800-98219200	Strong transcription	Gastric	stomach
33	chr9:98207000-98211800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
34	chr9:98207000-98211800	Strong transcription	Foreskin Fibroblast Primary Cells skin02	Skin
35	chr9:98207000-98212000	Strong transcription	Brain Germinal Matrix	brain
36	chr9:98207000-98212200	Strong transcription	Fetal Brain Female	brain
37	chr9:98207000-98221000	Strong transcription	Rectal Mucosa Donor 31	rectum
38	chr9:98207000-98221800	Strong transcription	Ovary	ovary
39	chr9:98207000-98223000	Strong transcription	Primary T cells fromperipheralblood	blood
40	chr9:98207200-98212200	Strong transcription	Cortex derived primary cultured neurospheres	brain
41	chr9:98207200-98216600	Strong transcription	HepG2	liver
42	chr9:98207200-98219400	Strong transcription	Brain Substantia Nigra	brain
43	chr9:98207200-98223200	Strong transcription	Rectal Mucosa Donor 29	rectum
44	chr9:98207200-98224400	Strong transcription	Breast Myoepithelial Primary Cells	Breast
45	chr9:98207400-98212200	Strong transcription	Primary T killer naive cells fromperipheralblood	blood
46	chr9:98207400-98224200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
47	chr9:98207600-98224400	Strong transcription	Skeletal Muscle Male	skeletal muscle
48	chr9:98208000-98215400	Genic enhancers	Fetal Stomach	stomach
49	chr9:98208000-98224400	Weak transcription	HSMM	muscle
50	chr9:98208400-98213800	Strong transcription	Spleen	Spleen

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