Variant report

Variant	rs1763528
Chromosome Location	chr6:134502227-134502228
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	FOXA1	chr6:134502220-134502465	HepG2	liver:	n/a	n/a
2	FOXA1	chr6:134502173-134502501	HepG2	liver:	n/a	n/a
3	FOXA2	chr6:134502190-134502472	HepG2	liver:	n/a	n/a
4	FOXA1	chr6:134502096-134502497	HepG2	liver:	n/a	n/a
5	FOXA1	chr6:134502214-134502497	HepG2	liver:	n/a	n/a

No.	Distal block	Cell Line	Cell type
1	chr6:134494529..134500516-chr6:134502176..134506962,6	K562	blood:
2	chr6:134499602..134501593-chr6:134502168..134504327,2	MCF-7	breast:
3	chr6:134499735..134502329-chr6:134850387..134852725,2	MCF-7	breast:

Variant related genes	Relation type
SGK1	TF binding region
ENSG00000232310	Chromatin interaction
ENSG00000118515	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:9)

rs_ID	r²[population]
rs1114707	0.80[CEU][hapmap];0.90[CHB][hapmap];0.95[CHD][hapmap];0.81[GIH][hapmap]
rs12196153	0.82[ASN][1000 genomes]
rs1743961	0.83[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1743963	0.81[AFR][1000 genomes];0.92[AMR][1000 genomes];0.92[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs1743964	0.89[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs1763526	0.82[AMR][1000 genomes];0.84[ASN][1000 genomes]
rs7744920	0.86[ASN][1000 genomes]
rs9373085	1.00[YRI][hapmap]
rs9389148	1.00[YRI][hapmap]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv492292	chr6:134464255-135028540	Weak transcription Flanking Active TSS Enhancers Active TSS Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS Genic enhancers ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	79 gene(s)	inside rSNPs	diseases
2	nsv1026369	chr6:134468470-135122264	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Genic enhancers Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases
3	nsv538444	chr6:134468470-135122264	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	81 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs1763528	TAAR1	cis	cerebellum	SCAN
rs1763528	SNORA33	cis	parietal	SCAN

Chromatin state (count:43 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:134499600-134504000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
2	chr6:134499600-134504000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
3	chr6:134499800-134503800	Weak transcription	HUES48 Cell Line	embryonic stem cell
4	chr6:134499800-134503800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr6:134499800-134523200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:134500000-134502800	Weak transcription	Brain Cingulate Gyrus	brain
7	chr6:134500000-134503200	Weak transcription	Brain Anterior Caudate	brain
8	chr6:134500000-134503400	Weak transcription	Brain Substantia Nigra	brain
9	chr6:134500000-134503400	Enhancers	Hela-S3	cervix
10	chr6:134500000-134503600	Weak transcription	H9 Cell Line	embryonic stem cell
11	chr6:134500000-134503600	Weak transcription	Cortex derived primary cultured neurospheres	brain
12	chr6:134500000-134503600	Weak transcription	Ovary	ovary
13	chr6:134500000-134503600	Weak transcription	K562	blood
14	chr6:134500000-134503800	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr6:134500000-134503800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
16	chr6:134500000-134503800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
17	chr6:134500000-134503800	Weak transcription	Brain Angular Gyrus	brain
18	chr6:134500000-134503800	Weak transcription	Placenta	Placenta
19	chr6:134500000-134503800	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr6:134500000-134503800	Weak transcription	Stomach Mucosa	stomach
21	chr6:134500000-134503800	Weak transcription	A549	lung
22	chr6:134500000-134512000	Weak transcription	Right Ventricle	heart
23	chr6:134500200-134503600	Weak transcription	Fetal Intestine Small	intestine
24	chr6:134500200-134503800	Weak transcription	Brain Inferior Temporal Lobe	brain
25	chr6:134500200-134503800	Weak transcription	Duodenum Mucosa	Duodenum
26	chr6:134500200-134504000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr6:134500200-134504600	Weak transcription	Fetal Heart	heart
28	chr6:134500200-134505000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr6:134500200-134505800	Weak transcription	Primary monocytes fromperipheralblood	blood
30	chr6:134500200-134505800	Weak transcription	Monocytes-CD14+_RO01746	blood
31	chr6:134500200-134507600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
32	chr6:134500200-134507600	Weak transcription	Primary T helper cells PMA-I stimulated	--
33	chr6:134500200-134508000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
34	chr6:134500400-134503800	Weak transcription	Fetal Intestine Large	intestine
35	chr6:134500600-134504000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
36	chr6:134500600-134506200	Weak transcription	Primary T cells from cord blood	blood
37	chr6:134501200-134503800	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
38	chr6:134501400-134503600	Weak transcription	Pancreas	Pancrea
39	chr6:134502000-134502800	Enhancers	ES-I3 Cell Line	embryonic stem cell
40	chr6:134502000-134504800	Enhancers	Brain Hippocampus Middle	brain
41	chr6:134502000-134509600	Enhancers	HepG2	liver
42	chr6:134502200-134502600	Enhancers	HUES6 Cell Line	embryonic stem cell
43	chr6:134502200-134503200	Enhancers	iPS-15b Cell Line	embryonic stem cell

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