Variant report

Variant	rs6563107
Chromosome Location	chr13:79969554-79969555
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr13:79958743..79963128-chr13:79965623..79969929,4	K562	blood:
2	chr13:79967156..79970145-chr13:79977393..79982048,5	MCF-7	breast:
3	chr13:79966275..79969690-chr13:79971723..79976630,6	K562	blood:

Variant related genes	Relation type
ENSG00000139746	Chromatin interaction
ENSG00000227354	Chromatin interaction

Extended variants
information (count: 45 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:44)

rs_ID	r²[population]
rs10507898	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs10507899	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs1410334	0.85[EUR][1000 genomes]
rs1410335	0.85[EUR][1000 genomes]
rs17071233	1.00[CEU][hapmap]
rs17071247	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap]
rs17071257	1.00[CEU][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap]
rs17071385	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs17071415	1.00[CEU][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs17071499	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.80[EUR][1000 genomes]
rs17071532	1.00[CEU][hapmap]
rs17071549	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[TSI][hapmap];0.94[YRI][hapmap]
rs17071558	1.00[CEU][hapmap]
rs17071566	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs17071574	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs17071585	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs17071627	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap]
rs41288268	0.80[EUR][1000 genomes]
rs57544957	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58056613	0.84[EUR][1000 genomes]
rs59755477	0.84[EUR][1000 genomes]
rs59773478	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6563117	1.00[CEU][hapmap]
rs7318984	0.96[EUR][1000 genomes]
rs7327148	1.00[CEU][hapmap]
rs7329633	0.88[EUR][1000 genomes]
rs7330804	0.82[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs7331979	1.00[CEU][hapmap];1.00[YRI][hapmap]
rs7338043	1.00[CEU][hapmap]
rs73548951	0.80[EUR][1000 genomes]
rs73548955	0.80[EUR][1000 genomes]
rs73551558	0.80[EUR][1000 genomes]
rs73564681	0.92[EUR][1000 genomes]
rs73566422	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73566424	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs73566435	1.00[EUR][1000 genomes]
rs73566454	1.00[EUR][1000 genomes]
rs73566469	0.86[AFR][1000 genomes];0.96[EUR][1000 genomes]
rs7491258	1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[TSI][hapmap];0.80[EUR][1000 genomes]
rs7984159	0.80[EUR][1000 genomes]
rs7985697	0.80[EUR][1000 genomes]
rs7992181	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7997554	1.00[CEU][hapmap];0.94[YRI][hapmap];0.84[EUR][1000 genomes]
rs8000870	1.00[CEU][hapmap];0.80[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832657	chr13:79904978-80099108	Active TSS Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	34 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:120 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:79951200-79979200	Weak transcription	Esophagus	oesophagus
2	chr13:79951800-79978200	Weak transcription	Aorta	Aorta
3	chr13:79952600-79977800	Weak transcription	Placenta Amnion	Placenta Amnion
4	chr13:79958600-79971000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
5	chr13:79958800-79969600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
6	chr13:79958800-79969800	Weak transcription	H1 Cell Line	embryonic stem cell
7	chr13:79958800-79969800	Weak transcription	iPS-20b Cell Line	embryonic stem cell
8	chr13:79958800-79971000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
9	chr13:79958800-79977800	Weak transcription	H9 Cell Line	embryonic stem cell
10	chr13:79960600-79969800	Weak transcription	HSMMtube	muscle
11	chr13:79960600-79975600	Weak transcription	Ovary	ovary
12	chr13:79960800-79971400	Weak transcription	NHLF	lung
13	chr13:79961000-79969800	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr13:79961600-79970000	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
15	chr13:79962800-79973000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
16	chr13:79962800-79974400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr13:79964600-79969800	Weak transcription	HUES64 Cell Line	embryonic stem cell
18	chr13:79966000-79969800	Weak transcription	Hela-S3	cervix
19	chr13:79967200-79969800	Strong transcription	Fetal Muscle Trunk	muscle
20	chr13:79967200-79970000	Strong transcription	A549	lung
21	chr13:79967600-79970000	Weak transcription	Stomach Smooth Muscle	stomach
22	chr13:79967600-79972000	ZNF genes & repeats	Cortex derived primary cultured neurospheres	brain
23	chr13:79967800-79969600	Genic enhancers	Dnd41	blood
24	chr13:79967800-79970000	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr13:79967800-79970000	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
26	chr13:79967800-79970000	ZNF genes & repeats	Fetal Stomach	stomach
27	chr13:79967800-79970400	Strong transcription	HSMM	muscle
28	chr13:79967800-79971000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
29	chr13:79968000-79969600	Strong transcription	Fetal Muscle Leg	muscle
30	chr13:79968000-79969800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
31	chr13:79968000-79970000	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
32	chr13:79968000-79970200	Strong transcription	IMR90 fetal lung fibroblasts Cell Line	lung
33	chr13:79968000-79970600	Weak transcription	NHDF-Ad	bronchial
34	chr13:79968000-79972800	Weak transcription	NHEK	skin
35	chr13:79968000-79973000	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr13:79968000-79975200	Weak transcription	Skeletal Muscle Female	skeletal muscle
37	chr13:79968000-79975800	Weak transcription	HMEC	breast
38	chr13:79968000-79976600	Weak transcription	Right Ventricle	heart
39	chr13:79968000-79977800	Weak transcription	Gastric	stomach
40	chr13:79968200-79969600	Enhancers	HUVEC	blood vessel
41	chr13:79968200-79969800	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
42	chr13:79968200-79969800	Weak transcription	Osteobl	bone
43	chr13:79968200-79970000	ZNF genes & repeats	Fetal Intestine Small	intestine
44	chr13:79968200-79972800	Weak transcription	Brain Cingulate Gyrus	brain
45	chr13:79968200-79973400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr13:79968200-79974400	Weak transcription	Brain Angular Gyrus	brain
47	chr13:79968200-79974600	Weak transcription	Brain Inferior Temporal Lobe	brain
48	chr13:79968200-79975600	Weak transcription	Skeletal Muscle Male	skeletal muscle
49	chr13:79968400-79969600	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
50	chr13:79968400-79969800	Enhancers	Primary T helper cells fromperipheralblood	blood

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