Variant report

Variant	rs17563686
Chromosome Location	chr5:74984818-74984819
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr5:74983383..74985816-chr5:74986584..74989106,2	MCF-7	breast:
2	chr5:74980613..74983267-chr5:74984574..74986964,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-ANKDD1B-4	chr5:74984723-74984821	ucscGeneNc_uc010izt_1

Variant related genes	Relation type
ENSG00000152359	Chromatin interaction

Extended variants
information (count: 40 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs10462356	1.00[CHB][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10462521	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11746063	0.92[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11748378	0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs166183	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17563863	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17649055	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1817869	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs193344	0.89[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs194137	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2047059	0.91[CEU][hapmap];0.81[JPT][hapmap];0.85[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs2307113	1.00[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.94[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs253388	0.86[CEU][hapmap];0.84[AFR][1000 genomes];0.93[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs253389	0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs253390	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34905687	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3797580	0.83[CEU][hapmap]
rs40059	0.85[EUR][1000 genomes]
rs41534344	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4703678	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.90[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs4703679	0.97[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4703680	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4704231	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.87[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4704234	1.00[CEU][hapmap];1.00[JPT][hapmap];0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs59778668	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60134294	1.00[AFR][1000 genomes];0.98[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs60423072	0.88[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs61173369	0.97[AFR][1000 genomes];0.91[AMR][1000 genomes];0.93[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs66493518	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67054144	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs67803720	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6868069	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs72633978	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs72633979	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7381033	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1027368	chr5:74759999-75663712	Active TSS Strong transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Weak transcription Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	39 gene(s)	inside rSNPs	diseases
2	nsv518475	chr5:74863041-75411804	Strong transcription Active TSS Flanking Active TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Genic enhancers Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	esv1850196	chr5:74890618-75138443	Strong transcription Weak transcription Genic enhancers Active TSS Enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	18 gene(s)	inside rSNPs	diseases
4	nsv522003	chr5:74947435-74988369	Weak transcription Enhancers Strong transcription Active TSS Flanking Active TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Genic enhancers Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
5	nsv830353	chr5:74961520-75152609	Strong transcription Weak transcription Flanking Active TSS Enhancers Bivalent/Poised TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	12 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	chr5:74961000-74987800	Weak transcription	Placenta Amnion	Placenta Amnion
2	chr5:74963000-74989800	Weak transcription	Esophagus	oesophagus
3	chr5:74964800-74989400	Weak transcription	HSMMtube	muscle
4	chr5:74965000-74991200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
5	chr5:74965000-74998000	Weak transcription	Fetal Brain Female	brain
6	chr5:74965200-75011800	Weak transcription	Brain Germinal Matrix	brain
7	chr5:74965400-74997800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
8	chr5:74965400-75012400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr5:74965400-75012400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
10	chr5:74965400-75012400	Weak transcription	Right Ventricle	heart
11	chr5:74965600-74998200	Weak transcription	Primary T killer memory cells from peripheral blood	blood
12	chr5:74965600-74998200	Weak transcription	Fetal Heart	heart
13	chr5:74965600-75010400	Weak transcription	Gastric	stomach
14	chr5:74965600-75011400	Weak transcription	Small Intestine	intestine
15	chr5:74965800-74991800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
16	chr5:74966000-74991000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr5:74966000-74998400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
18	chr5:74967200-74989600	Weak transcription	Hela-S3	cervix
19	chr5:74968800-74998400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr5:74969000-74991600	Weak transcription	H9 Cell Line	embryonic stem cell
21	chr5:74971000-74985800	Weak transcription	Skeletal Muscle Male	skeletal muscle
22	chr5:74971000-74997600	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
23	chr5:74971200-75012400	Weak transcription	Aorta	Aorta
24	chr5:74971200-75012400	Weak transcription	Brain Substantia Nigra	brain
25	chr5:74972400-74985600	Weak transcription	Fetal Muscle Leg	muscle
26	chr5:74972400-74985800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
27	chr5:74972600-74985400	Weak transcription	Left Ventricle	heart
28	chr5:74974400-74997800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
29	chr5:74976600-74998200	Weak transcription	Colonic Mucosa	Colon
30	chr5:74977200-74997600	Weak transcription	Fetal Kidney	kidney
31	chr5:74977200-74997800	Weak transcription	Brain Angular Gyrus	brain
32	chr5:74977400-74997600	Weak transcription	NHEK	skin
33	chr5:74977400-74997800	Weak transcription	NHDF-Ad	bronchial
34	chr5:74978000-74986200	Strong transcription	Primary Natural Killer cells fromperipheralblood	blood
35	chr5:74978000-74991400	Strong transcription	Monocytes-CD14+_RO01746	blood
36	chr5:74978200-74988200	Weak transcription	NHLF	lung
37	chr5:74978200-74997600	Weak transcription	Stomach Smooth Muscle	stomach
38	chr5:74978600-74986400	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
39	chr5:74978800-74988200	Strong transcription	Primary neutrophils fromperipheralblood	blood
40	chr5:74978800-74989600	Weak transcription	Colon Smooth Muscle	Colon
41	chr5:74978800-74992000	Strong transcription	Primary monocytes fromperipheralblood	blood
42	chr5:74978800-74992200	Strong transcription	Primary T helper cells fromperipheralblood	blood
43	chr5:74978800-74997600	Weak transcription	Rectal Smooth Muscle	rectum
44	chr5:74979000-74997600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
45	chr5:74979000-75003800	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
46	chr5:74979200-74986200	Strong transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
47	chr5:74979200-74986800	Strong transcription	Liver	Liver
48	chr5:74979200-74987000	Strong transcription	Fetal Thymus	thymus
49	chr5:74979400-74987200	Strong transcription	Primary B cells from peripheral blood	blood
50	chr5:74979400-74991000	Strong transcription	HUES64 Cell Line	embryonic stem cell

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