Variant report

Variant	rs58925215
Chromosome Location	chr9:96375946-96375947
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96353488..96355423-chr9:96374627..96377387,2	K562	blood:
2	chr9:96375382..96377064-chr9:96378905..96380672,2	MCF-7	breast:
3	chr9:96374097..96376355-chr9:96382214..96384351,2	K562	blood:
4	chr9:96336833..96339118-chr9:96375167..96379434,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000197724	Chromatin interaction

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:47)

rs_ID	r²[population]
rs10116959	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10117404	1.00[EUR][1000 genomes]
rs10118281	1.00[EUR][1000 genomes]
rs10118574	1.00[EUR][1000 genomes]
rs10118955	1.00[EUR][1000 genomes]
rs10121548	1.00[EUR][1000 genomes]
rs10121798	1.00[EUR][1000 genomes]
rs10123186	1.00[EUR][1000 genomes]
rs10123412	1.00[EUR][1000 genomes]
rs10992758	1.00[EUR][1000 genomes]
rs10992822	1.00[EUR][1000 genomes]
rs1123475	1.00[EUR][1000 genomes]
rs12337821	1.00[EUR][1000 genomes]
rs12340447	1.00[EUR][1000 genomes]
rs12344186	1.00[EUR][1000 genomes]
rs12346586	1.00[EUR][1000 genomes]
rs12348843	1.00[EUR][1000 genomes]
rs12349453	1.00[EUR][1000 genomes]
rs12350884	1.00[EUR][1000 genomes]
rs16909307	1.00[EUR][1000 genomes]
rs28369450	1.00[EUR][1000 genomes]
rs28406634	1.00[EUR][1000 genomes]
rs28464341	1.00[EUR][1000 genomes]
rs28523540	1.00[EUR][1000 genomes]
rs28630935	1.00[EUR][1000 genomes]
rs28666855	1.00[EUR][1000 genomes]
rs28728320	1.00[EUR][1000 genomes]
rs28848910	1.00[EUR][1000 genomes]
rs58747030	1.00[EUR][1000 genomes]
rs61301026	1.00[EUR][1000 genomes]
rs61467488	1.00[EUR][1000 genomes]
rs61636268	1.00[EUR][1000 genomes]
rs7021423	1.00[EUR][1000 genomes]
rs7022246	1.00[EUR][1000 genomes]
rs7033089	1.00[EUR][1000 genomes]
rs73651245	1.00[EUR][1000 genomes]
rs73651251	1.00[EUR][1000 genomes]
rs73651269	1.00[EUR][1000 genomes]
rs73651270	1.00[EUR][1000 genomes]
rs73651297	1.00[EUR][1000 genomes]
rs73651298	1.00[EUR][1000 genomes]
rs7848429	1.00[EUR][1000 genomes]
rs7850596	1.00[EUR][1000 genomes]
rs7854758	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7856259	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7870048	1.00[EUR][1000 genomes]
rs7871486	1.00[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	nsv1040891	chr9:96361529-96397338	Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv1044461	chr9:96362048-96397338	Enhancers Weak transcription Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Active TSS	Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv893585	chr9:96363859-96403367	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Active TSS Flanking Active TSS Flanking Bivalent TSS/Enh	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv893586	chr9:96363859-96493773	Strong transcription Weak transcription Enhancers ZNF genes & repeats Genic enhancers Flanking Active TSS Bivalent Enhancer Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
5	nsv1055035	chr9:96372269-96402747	Weak transcription Strong transcription Genic enhancers Enhancers ZNF genes & repeats Flanking Active TSS Active TSS	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	esv3408240	chr9:96375131-96379629	Enhancers ZNF genes & repeats Weak transcription Strong transcription Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
7	nsv1036609	chr9:96375217-96477641	Strong transcription Weak transcription ZNF genes & repeats Enhancers Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Active TSS Active TSS	Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
8	esv3440136	chr9:96375831-96378729	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:79 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96352400-96384600	Weak transcription	NHLF	lung
2	chr9:96361400-96380400	Weak transcription	Fetal Brain Male	brain
3	chr9:96361600-96379400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
4	chr9:96363200-96392000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr9:96363600-96383600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr9:96364200-96380600	Weak transcription	H9 Cell Line	embryonic stem cell
7	chr9:96366400-96379400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
8	chr9:96366600-96386600	Weak transcription	Fetal Heart	heart
9	chr9:96372800-96376000	Weak transcription	Right Ventricle	heart
10	chr9:96372800-96392000	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
11	chr9:96373000-96377200	Enhancers	Psoas Muscle	Psoas
12	chr9:96373000-96379400	Weak transcription	Primary T helper cells fromperipheralblood	blood
13	chr9:96373200-96376000	Weak transcription	Monocytes-CD14+_RO01746	blood
14	chr9:96373400-96377000	Enhancers	Skeletal Muscle Male	skeletal muscle
15	chr9:96373400-96379400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr9:96373400-96379400	Weak transcription	Brain Anterior Caudate	brain
17	chr9:96373400-96379400	Weak transcription	Fetal Intestine Large	intestine
18	chr9:96373400-96386200	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
19	chr9:96373400-96387000	Weak transcription	Fetal Brain Female	brain
20	chr9:96373400-96390000	Weak transcription	Primary B cells from cord blood	blood
21	chr9:96373600-96379400	Weak transcription	Brain Germinal Matrix	brain
22	chr9:96373800-96379000	Weak transcription	Cortex derived primary cultured neurospheres	brain
23	chr9:96374200-96376400	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
24	chr9:96374200-96376600	Enhancers	Skeletal Muscle Female	skeletal muscle
25	chr9:96374400-96376000	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
26	chr9:96374400-96376400	Enhancers	GM12878-XiMat	blood
27	chr9:96374400-96376600	Enhancers	Colon Smooth Muscle	Colon
28	chr9:96374400-96376800	Enhancers	Breast Myoepithelial Primary Cells	Breast
29	chr9:96374400-96377000	Enhancers	Primary B cells from peripheral blood	blood
30	chr9:96374600-96376000	Enhancers	Primary T cells fromperipheralblood	blood
31	chr9:96374600-96376600	Enhancers	Left Ventricle	heart
32	chr9:96374600-96377000	Weak transcription	Fetal Kidney	kidney
33	chr9:96374600-96378000	Enhancers	Spleen	Spleen
34	chr9:96374600-96378200	Enhancers	Gastric	stomach
35	chr9:96374600-96399800	Weak transcription	K562	blood
36	chr9:96374800-96376400	Weak transcription	Primary T cells from cord blood	blood
37	chr9:96374800-96376800	Enhancers	Stomach Smooth Muscle	stomach
38	chr9:96374800-96379400	Weak transcription	Small Intestine	intestine
39	chr9:96374800-96385400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
40	chr9:96375000-96376200	Enhancers	Lung	lung
41	chr9:96375000-96376400	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
42	chr9:96375000-96376600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
43	chr9:96375000-96381600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
44	chr9:96375000-96382400	Weak transcription	Liver	Liver
45	chr9:96375000-96382600	Weak transcription	Hela-S3	cervix
46	chr9:96375200-96376000	Strong transcription	Fetal Intestine Small	intestine
47	chr9:96375200-96376400	Enhancers	Right Atrium	heart
48	chr9:96375200-96376600	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
49	chr9:96375200-96379200	Weak transcription	Brain Hippocampus Middle	brain
50	chr9:96375200-96379400	Weak transcription	Primary T helper naive cells from peripheral blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links