Variant report

Variant	rs62636871
Chromosome Location	chr18:13244163-13244164
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr18:13243981..13246911-chr18:13539689..13542169,2	MCF-7	breast:
2	chr18:13241631..13244268-chr18:13265923..13268716,3	MCF-7	breast:
3	chr18:13218425..13221340-chr18:13242383..13244602,2	MCF-7	breast:
4	chr18:13215937..13222150-chr18:13244092..13248320,7	MCF-7	breast:

Variant related genes	Relation type
ENSG00000168675	Chromatin interaction
ENSG00000267239	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:10)

rs_ID	r²[population]
rs12455455	0.91[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs12607576	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12969923	0.81[EUR][1000 genomes]
rs3901403	0.80[ASN][1000 genomes]
rs4277409	0.80[ASN][1000 genomes]
rs4797747	0.80[ASN][1000 genomes]
rs4797749	0.83[ASN][1000 genomes]
rs55962651	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs56191278	0.91[AFR][1000 genomes];0.98[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs59835474	0.86[AFR][1000 genomes];0.98[AMR][1000 genomes];0.99[EUR][1000 genomes];0.97[ASN][1000 genomes]

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	nsv833591	chr18:13093777-13253748	Weak transcription Enhancers Flanking Bivalent TSS/Enh Flanking Active TSS Bivalent/Poised TSS Active TSS Strong transcription Bivalent Enhancer Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv909408	chr18:13122618-13308950	ZNF genes & repeats Bivalent Enhancer Enhancers Weak transcription Flanking Active TSS Genic enhancers Strong transcription Active TSS Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
3	nsv909410	chr18:13151544-13308950	Enhancers ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Strong transcription Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:38 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr18:13223800-13259800	Weak transcription	Primary hematopoietic stem cells short term culture	blood
2	chr18:13224000-13259800	Weak transcription	Primary hematopoietic stem cells	blood
3	chr18:13224400-13245400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
4	chr18:13224400-13259800	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr18:13232800-13246200	Weak transcription	Psoas Muscle	Psoas
6	chr18:13233000-13260200	Weak transcription	Colonic Mucosa	Colon
7	chr18:13233200-13245800	Weak transcription	Right Atrium	heart
8	chr18:13233400-13254000	Weak transcription	Spleen	Spleen
9	chr18:13233400-13259000	Weak transcription	Primary T cells from cord blood	blood
10	chr18:13235800-13245800	Weak transcription	Brain Inferior Temporal Lobe	brain
11	chr18:13236200-13258800	Weak transcription	Fetal Lung	lung
12	chr18:13237400-13258800	Weak transcription	Adipose Nuclei	Adipose
13	chr18:13237400-13258800	Weak transcription	Duodenum Smooth Muscle	Duodenum
14	chr18:13237800-13258800	Weak transcription	Colon Smooth Muscle	Colon
15	chr18:13238600-13245200	Weak transcription	Fetal Heart	heart
16	chr18:13239600-13255800	Weak transcription	Skeletal Muscle Male	skeletal muscle
17	chr18:13240200-13244800	Strong transcription	Fetal Thymus	thymus
18	chr18:13240200-13246200	Weak transcription	Liver	Liver
19	chr18:13240200-13256000	Weak transcription	Skeletal Muscle Female	skeletal muscle
20	chr18:13240400-13246400	Weak transcription	Fetal Muscle Leg	muscle
21	chr18:13240600-13245200	Weak transcription	Left Ventricle	heart
22	chr18:13240600-13245600	Weak transcription	Right Ventricle	heart
23	chr18:13240600-13246200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
24	chr18:13240600-13252400	Weak transcription	Brain Hippocampus Middle	brain
25	chr18:13240600-13252600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
26	chr18:13240800-13245200	Weak transcription	Pancreas	Pancrea
27	chr18:13241400-13244800	Weak transcription	Fetal Brain Female	brain
28	chr18:13242000-13245400	Weak transcription	Brain Anterior Caudate	brain
29	chr18:13242400-13245600	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr18:13242800-13245400	Strong transcription	Stomach Smooth Muscle	stomach
31	chr18:13243000-13245400	ZNF genes & repeats	Thymus	Thymus
32	chr18:13243200-13260200	Weak transcription	Aorta	Aorta
33	chr18:13243400-13245000	Weak transcription	Brain Germinal Matrix	brain
34	chr18:13243600-13244400	Weak transcription	Fetal Brain Male	brain
35	chr18:13243600-13278200	Weak transcription	Dnd41	blood
36	chr18:13243800-13245000	Weak transcription	Gastric	stomach
37	chr18:13243800-13252800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
38	chr18:13243800-13252800	Weak transcription	Fetal Stomach	stomach

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links