Variant report

Variant	rs10989508
Chromosome Location	chr9:104208858-104208859
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	chr9:104208004..104209865-chr9:104292464..104295242,2	K562	blood:
2	chr9:104159548..104162633-chr9:104207516..104209377,3	MCF-7	breast:

Variant related genes	Relation type
ENSG00000136870	Chromatin interaction
ENSG00000136897	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs10123064	1.00[AFR][1000 genomes]
rs10989500	1.00[AFR][1000 genomes]
rs10989507	1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989509	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10989510	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs10989511	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs10989513	0.80[EUR][1000 genomes]
rs10989514	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs10989517	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs12337537	1.00[AFR][1000 genomes]
rs13283255	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13284199	0.96[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs13289803	1.00[AFR][1000 genomes]
rs13291205	1.00[AFR][1000 genomes]
rs13292387	1.00[AFR][1000 genomes]
rs13293022	1.00[AFR][1000 genomes]
rs13293668	0.87[EUR][1000 genomes]
rs13297805	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs17186534	1.00[AFR][1000 genomes]
rs17186933	1.00[AFR][1000 genomes]
rs17772514	1.00[AFR][1000 genomes]
rs17772612	1.00[AFR][1000 genomes]
rs17772672	1.00[AFR][1000 genomes]
rs17772869	1.00[AFR][1000 genomes]
rs17773076	1.00[AFR][1000 genomes]
rs1929492	1.00[AFR][1000 genomes]
rs34160569	0.92[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs34664558	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35772088	1.00[AFR][1000 genomes]
rs41310087	1.00[AFR][1000 genomes]
rs45455902	1.00[AFR][1000 genomes]
rs71491792	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs954738	1.00[AFR][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	nsv1046975	chr9:104167583-104659873	Weak transcription Flanking Active TSS Active TSS Enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Strong transcription ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
2	nsv893626	chr9:104172936-104324545	Enhancers Active TSS Flanking Active TSS Bivalent Enhancer Weak transcription Strong transcription Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases
3	nsv614962	chr9:104204614-104240708	Enhancers Strong transcription Weak transcription Flanking Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:25 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:104197000-104211400	Weak transcription	Right Atrium	heart
2	chr9:104197400-104209600	Enhancers	Fetal Intestine Large	intestine
3	chr9:104204800-104211400	Weak transcription	Left Ventricle	heart
4	chr9:104205000-104209600	Enhancers	Fetal Intestine Small	intestine
5	chr9:104205600-104211400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
6	chr9:104205800-104211000	Weak transcription	Fetal Heart	heart
7	chr9:104206000-104209000	Enhancers	Fetal Adrenal Gland	Adrenal Gland
8	chr9:104206000-104210800	Weak transcription	Psoas Muscle	Psoas
9	chr9:104206400-104211400	Weak transcription	Brain Germinal Matrix	brain
10	chr9:104206600-104210800	Weak transcription	Fetal Brain Female	brain
11	chr9:104207000-104210800	Weak transcription	Fetal Muscle Leg	muscle
12	chr9:104207000-104211400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr9:104207000-104211400	Weak transcription	Pancreas	Pancrea
14	chr9:104208000-104211400	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr9:104208000-104211400	Weak transcription	Colon Smooth Muscle	Colon
16	chr9:104208200-104211000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
17	chr9:104208200-104211000	Weak transcription	Brain Hippocampus Middle	brain
18	chr9:104208200-104211000	Weak transcription	A549	lung
19	chr9:104208200-104211400	Weak transcription	Brain Cingulate Gyrus	brain
20	chr9:104208400-104210800	Weak transcription	Liver	Liver
21	chr9:104208400-104211000	Weak transcription	Brain Substantia Nigra	brain
22	chr9:104208400-104211200	Weak transcription	Pancreatic Islets	Pancreatic Islet
23	chr9:104208400-104211400	Weak transcription	Duodenum Smooth Muscle	Duodenum
24	chr9:104208600-104209600	Enhancers	HepG2	liver
25	chr9:104208600-104211400	Weak transcription	Brain Angular Gyrus	brain

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