Variant report

Variant	rs10124238
Chromosome Location	chr9:100853942-100853943
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:100836616..100838130-chr9:100853751..100855728,2	K562	blood:

Variant related genes	Relation type
ENSG00000095380	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:13)

rs_ID	r²[population]
rs1058446	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs10818468	0.99[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs10818472	0.98[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs10984977	0.94[AFR][1000 genomes];0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12348197	0.83[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12685502	0.82[AMR][1000 genomes];0.91[ASN][1000 genomes]
rs16912590	0.98[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28489815	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7037233	0.82[ASN][1000 genomes]
rs7855984	0.85[AFR][1000 genomes];0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs7874696	0.86[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs9969738	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs9969813	0.87[AFR][1000 genomes];0.88[AMR][1000 genomes];0.93[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv482635	chr9:100775549-100953239	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	36 gene(s)	inside rSNPs	diseases
2	nsv1040483	chr9:100835325-100868437	Weak transcription Enhancers Genic enhancers Flanking Active TSS Strong transcription Active TSS 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	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:90 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:100839400-100861800	Strong transcription	Primary mononuclear cells fromperipheralblood	Blood
2	chr9:100845200-100856200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
3	chr9:100845200-100856600	Weak transcription	Small Intestine	intestine
4	chr9:100846000-100862600	Strong transcription	Primary monocytes fromperipheralblood	blood
5	chr9:100846200-100862200	Strong transcription	Duodenum Mucosa	Duodenum
6	chr9:100846400-100854200	Weak transcription	HSMMtube	muscle
7	chr9:100846400-100856400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
8	chr9:100846400-100861200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
9	chr9:100847400-100859400	Weak transcription	HepG2	liver
10	chr9:100847400-100869400	Weak transcription	A549	lung
11	chr9:100847600-100867000	Weak transcription	Hela-S3	cervix
12	chr9:100849200-100854400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
13	chr9:100849200-100856400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
14	chr9:100849600-100856400	Weak transcription	Rectal Mucosa Donor 29	rectum
15	chr9:100849800-100856200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
16	chr9:100849800-100856400	Weak transcription	Rectal Mucosa Donor 31	rectum
17	chr9:100850000-100854200	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
18	chr9:100850000-100854400	Weak transcription	Fetal Intestine Large	intestine
19	chr9:100850400-100854200	Weak transcription	H9 Cell Line	embryonic stem cell
20	chr9:100850400-100854400	Weak transcription	Spleen	Spleen
21	chr9:100850400-100854800	Weak transcription	Lung	lung
22	chr9:100850400-100856600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
23	chr9:100850400-100856600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr9:100850400-100856600	Weak transcription	Esophagus	oesophagus
25	chr9:100850400-100856600	Weak transcription	Gastric	stomach
26	chr9:100850400-100856600	Weak transcription	Stomach Mucosa	stomach
27	chr9:100850400-100856800	Weak transcription	Sigmoid Colon	Sigmoid Colon
28	chr9:100850400-100857800	Weak transcription	Aorta	Aorta
29	chr9:100850400-100858000	Weak transcription	Rectal Smooth Muscle	rectum
30	chr9:100850400-100859000	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
31	chr9:100850400-100861000	Weak transcription	HMEC	breast
32	chr9:100850400-100868000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
33	chr9:100850400-100880400	Weak transcription	HSMM	muscle
34	chr9:100850600-100854000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
35	chr9:100850600-100854000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
36	chr9:100850600-100854200	Weak transcription	Placenta	Placenta
37	chr9:100850600-100854400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
38	chr9:100850600-100854600	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
39	chr9:100850600-100855400	Weak transcription	Colonic Mucosa	Colon
40	chr9:100850600-100856400	Weak transcription	Duodenum Smooth Muscle	Duodenum
41	chr9:100850600-100856600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
42	chr9:100850600-100856800	Weak transcription	Brain Anterior Caudate	brain
43	chr9:100850600-100857200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
44	chr9:100850600-100858000	Weak transcription	Brain Hippocampus Middle	brain
45	chr9:100850600-100863000	Weak transcription	Muscle Satellite Cultured Cells	--
46	chr9:100850600-100864400	Weak transcription	Brain Germinal Matrix	brain
47	chr9:100850600-100875400	Weak transcription	NHLF	lung
48	chr9:100850600-100880600	Weak transcription	Fetal Lung	lung
49	chr9:100850800-100854200	Weak transcription	NHEK	skin
50	chr9:100850800-100857000	Weak transcription	Primary hematopoietic stem cells	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links