Variant report

Variant	rs10121371
Chromosome Location	chr9:2790559-2790560
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 29 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs1060812	0.89[EUR][1000 genomes]
rs10738782	0.81[EUR][1000 genomes]
rs10757675	0.88[EUR][1000 genomes]
rs10812639	0.80[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs10812641	0.81[CHB][hapmap]
rs10812668	0.82[EUR][1000 genomes]
rs1454635	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.95[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs2168135	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs4623490	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs4740699	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4741767	0.90[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs6476021	0.81[ASN][1000 genomes]
rs6476022	0.82[ASN][1000 genomes]
rs7027337	0.84[AMR][1000 genomes];0.91[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7033566	0.80[ASN][1000 genomes]
rs7035082	0.91[EUR][1000 genomes]
rs7849358	0.82[EUR][1000 genomes]
rs7869344	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:11 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv530929	chr9:1998911-2925112	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv916750	chr9:2430846-2826706	Enhancers Flanking Active TSS ZNF genes & repeats Strong transcription Weak transcription Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
3	nsv1017581	chr9:2494815-3172020	Enhancers Weak transcription Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
4	nsv539934	chr9:2494815-3172020	Strong transcription Weak transcription Enhancers Genic enhancers Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
5	nsv892079	chr9:2681430-2931341	Weak transcription Enhancers Strong transcription Bivalent Enhancer Active TSS Flanking Active TSS Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	14 gene(s)	inside rSNPs	diseases
6	nsv892081	chr9:2691186-2851026	Active TSS Genic enhancers Weak transcription Strong transcription Enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
7	nsv892082	chr9:2699606-2833267	Weak transcription Enhancers Genic enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	2 gene(s)	inside rSNPs	diseases
8	nsv1024262	chr9:2703159-3067931	Strong transcription Weak transcription Enhancers ZNF genes & repeats Flanking Active TSS Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
9	nsv1028011	chr9:2759097-2904277	Enhancers Weak transcription Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Active TSS Active TSS Bivalent Enhancer Genic enhancers Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases
10	nsv1022873	chr9:2768825-2863264	Enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Genic enhancers Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
11	nsv1032474	chr9:2773573-2804799	Strong transcription Weak transcription ZNF genes & repeats Flanking Active TSS Enhancers Genic enhancers Transcr. at gene 5' and 3'	Chromatin interactive region lncRNA miRNA target site	n/a	inside rSNPs	diseases

No data

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:2765800-2791200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
2	chr9:2775000-2801600	Weak transcription	Colon Smooth Muscle	Colon
3	chr9:2777200-2790800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
4	chr9:2777800-2791600	Weak transcription	Right Ventricle	heart
5	chr9:2777800-2800000	Weak transcription	Colonic Mucosa	Colon
6	chr9:2778000-2790800	Weak transcription	Esophagus	oesophagus
7	chr9:2778000-2790800	Weak transcription	Pancreas	Pancrea
8	chr9:2778000-2790800	Weak transcription	Thymus	Thymus
9	chr9:2778000-2791000	Weak transcription	Spleen	Spleen
10	chr9:2778000-2794400	Weak transcription	Psoas Muscle	Psoas
11	chr9:2778000-2801600	Weak transcription	Small Intestine	intestine
12	chr9:2778000-2801800	Weak transcription	Gastric	stomach
13	chr9:2778000-2803200	Weak transcription	Aorta	Aorta
14	chr9:2778400-2791000	Weak transcription	Pancreatic Islets	Pancreatic Islet
15	chr9:2778400-2800200	Weak transcription	Rectal Smooth Muscle	rectum
16	chr9:2778600-2801400	Weak transcription	Fetal Brain Male	brain
17	chr9:2778600-2801600	Weak transcription	Placenta Amnion	Placenta Amnion
18	chr9:2778800-2790800	Weak transcription	HepG2	liver
19	chr9:2778800-2791000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
20	chr9:2778800-2791000	Weak transcription	Rectal Mucosa Donor 29	rectum
21	chr9:2778800-2791200	Weak transcription	Brain Anterior Caudate	brain
22	chr9:2778800-2798200	Weak transcription	Brain Cingulate Gyrus	brain
23	chr9:2778800-2799600	Weak transcription	Brain Angular Gyrus	brain
24	chr9:2778800-2800000	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr9:2778800-2802800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
26	chr9:2779000-2790800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
27	chr9:2779200-2801600	Weak transcription	Brain Substantia Nigra	brain
28	chr9:2779400-2791200	Weak transcription	NHDF-Ad	bronchial
29	chr9:2782400-2800800	Strong transcription	Breast Myoepithelial Primary Cells	Breast
30	chr9:2783200-2798800	Weak transcription	Fetal Kidney	kidney
31	chr9:2783400-2790800	Strong transcription	HSMM	muscle
32	chr9:2786400-2797000	Weak transcription	Fetal Heart	heart
33	chr9:2786400-2800400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
34	chr9:2786800-2796000	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
35	chr9:2787200-2790800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
36	chr9:2787200-2792000	ZNF genes & repeats	GM12878-XiMat	blood
37	chr9:2787200-2792000	ZNF genes & repeats	Monocytes-CD14+_RO01746	blood
38	chr9:2787200-2793400	ZNF genes & repeats	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr9:2787200-2802200	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
40	chr9:2787400-2792000	ZNF genes & repeats	Primary B cells from cord blood	blood
41	chr9:2787600-2790600	Weak transcription	Brain Germinal Matrix	brain
42	chr9:2787600-2790800	Strong transcription	iPS-18 Cell Line	embryonic stem cell
43	chr9:2787600-2791000	Weak transcription	Placenta	Placenta
44	chr9:2787600-2793200	Strong transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
45	chr9:2787600-2808000	Strong transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr9:2787800-2790800	Weak transcription	Stomach Smooth Muscle	stomach
47	chr9:2787800-2792200	Strong transcription	Primary T cells fromperipheralblood	blood
48	chr9:2787800-2793800	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
49	chr9:2787800-2793800	Strong transcription	Adipose Nuclei	Adipose
50	chr9:2787800-2798400	Strong transcription	Foreskin Keratinocyte Primary Cells skin02	Skin

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links