Variant report

Variant	rs7811417
Chromosome Location	chr7:21534152-21534153
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	chr7:21336030..21338681-chr7:21532926..21535692,2	MCF-7	breast:

Extended variants
information (count: 20 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs10272006	0.92[CEU][hapmap];0.90[TSI][hapmap];0.87[EUR][1000 genomes]
rs11983472	0.82[CEU][hapmap]
rs12668354	0.90[TSI][hapmap];0.93[EUR][1000 genomes]
rs12672629	0.92[EUR][1000 genomes]
rs2282888	0.83[TSI][hapmap]
rs28541530	0.94[EUR][1000 genomes]
rs3735440	0.92[CEU][hapmap];0.93[TSI][hapmap];0.94[EUR][1000 genomes]
rs4722031	0.81[EUR][1000 genomes]
rs6461561	0.88[TSI][hapmap];0.81[EUR][1000 genomes]
rs6461567	0.83[CEU][hapmap]
rs6948810	0.81[CEU][hapmap]
rs7792280	0.88[CEU][hapmap];0.86[AFR][1000 genomes];0.88[AMR][1000 genomes]
rs7798894	0.80[CEU][hapmap]
rs7810841	0.92[CEU][hapmap];1.00[GIH][hapmap];0.88[LWK][hapmap];0.85[MKK][hapmap];0.95[TSI][hapmap];0.84[AFR][1000 genomes];0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027302	chr7:21391598-21727016	Flanking Active TSS Enhancers Weak transcription Active TSS ZNF genes & repeats Bivalent/Poised TSS Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
2	nsv538800	chr7:21391598-21727016	Enhancers Genic enhancers Flanking Bivalent TSS/Enh Weak transcription ZNF genes & repeats Transcr. at gene 5' and 3' Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	24 gene(s)	inside rSNPs	diseases
3	nsv1028434	chr7:21468437-21636671	ZNF genes & repeats Strong transcription Bivalent/Poised TSS Weak transcription Bivalent Enhancer Enhancers Flanking Bivalent TSS/Enh Genic enhancers Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	7 gene(s)	inside rSNPs	diseases
4	nsv1023655	chr7:21486485-21727016	Enhancers Strong transcription Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent Enhancer Flanking Active TSS Bivalent/Poised TSS Active TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
5	nsv538801	chr7:21486485-21727016	ZNF genes & repeats Enhancers Weak transcription Active TSS Transcr. at gene 5' and 3' Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Flanking Active TSS	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases
6	nsv830921	chr7:21489100-21688016	Strong transcription ZNF genes & repeats Bivalent Enhancer Weak transcription Enhancers Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Flanking Active TSS Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region miRNA miRNA target site	3 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs7811417	TRA2A	cis	parietal	SCAN

Chromatin state (count:48 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:21470400-21536400	Weak transcription	Esophagus	oesophagus
2	chr7:21487400-21557000	Weak transcription	Aorta	Aorta
3	chr7:21491000-21536400	Weak transcription	Left Ventricle	heart
4	chr7:21492200-21545200	Weak transcription	Small Intestine	intestine
5	chr7:21493000-21539000	Weak transcription	Spleen	Spleen
6	chr7:21498600-21543600	Weak transcription	Pancreas	Pancrea
7	chr7:21500000-21552800	Weak transcription	Brain Inferior Temporal Lobe	brain
8	chr7:21505600-21536600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
9	chr7:21514000-21536400	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr7:21516200-21556400	Weak transcription	Brain Substantia Nigra	brain
11	chr7:21517000-21556000	Weak transcription	Skeletal Muscle Female	skeletal muscle
12	chr7:21518200-21536400	Weak transcription	Duodenum Smooth Muscle	Duodenum
13	chr7:21518200-21536400	Weak transcription	Fetal Kidney	kidney
14	chr7:21520800-21552800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
15	chr7:21521200-21552600	Weak transcription	Brain Angular Gyrus	brain
16	chr7:21526800-21536400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
17	chr7:21527000-21536200	Weak transcription	Psoas Muscle	Psoas
18	chr7:21529800-21539200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Male	--
19	chr7:21530000-21534400	ZNF genes & repeats	HUES64 Cell Line	embryonic stem cell
20	chr7:21530400-21534200	ZNF genes & repeats	iPS-20b Cell Line	embryonic stem cell
21	chr7:21530600-21536600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
22	chr7:21530600-21540200	Weak transcription	Ovary	ovary
23	chr7:21530600-21541800	Weak transcription	Thymus	Thymus
24	chr7:21531400-21540000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr7:21531400-21544400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
26	chr7:21532000-21534600	ZNF genes & repeats	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
27	chr7:21532200-21537400	ZNF genes & repeats	Primary hematopoietic stem cells	blood
28	chr7:21532800-21536400	Weak transcription	Sigmoid Colon	Sigmoid Colon
29	chr7:21532800-21540000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
30	chr7:21532800-21540600	Weak transcription	Fetal Thymus	thymus
31	chr7:21532800-21542800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
32	chr7:21533000-21534200	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr7:21533000-21534400	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
34	chr7:21533000-21536200	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
35	chr7:21533000-21536400	Weak transcription	Pancreatic Islets	Pancreatic Islet
36	chr7:21533000-21540400	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
37	chr7:21533200-21542800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
38	chr7:21533200-21547600	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr7:21533400-21550400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
40	chr7:21533600-21542000	Weak transcription	Primary T cells fromperipheralblood	blood
41	chr7:21533600-21549800	Weak transcription	HUES48 Cell Line	embryonic stem cell
42	chr7:21533800-21534200	ZNF genes & repeats	Primary hematopoietic stem cells G-CSF-mobilized Female	--
43	chr7:21533800-21534400	ZNF genes & repeats	Primary T helper cells PMA-I stimulated	--
44	chr7:21533800-21534400	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
45	chr7:21533800-21534600	ZNF genes & repeats	HUES6 Cell Line	embryonic stem cell
46	chr7:21534000-21534400	ZNF genes & repeats	Brain Germinal Matrix	brain
47	chr7:21534000-21535200	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr7:21534000-21535200	Strong transcription	Primary B cells from cord blood	blood

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links