Variant report

Variant	rs9308109
Chromosome Location	chr4:166532454-166532455
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 112 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs10001116	0.83[EUR][1000 genomes]
rs10001551	0.83[EUR][1000 genomes]
rs10018347	0.83[EUR][1000 genomes]
rs10025696	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs10030774	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs10034270	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs10213485	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs10213486	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs10213490	0.87[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs10517853	0.89[ASN][1000 genomes]
rs10517854	0.91[EUR][1000 genomes]
rs1246916	0.83[AFR][1000 genomes];0.88[ASN][1000 genomes]
rs1459510	0.91[EUR][1000 genomes]
rs1459511	0.91[EUR][1000 genomes]
rs16999553	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs17046824	0.91[EUR][1000 genomes]
rs17046826	0.91[EUR][1000 genomes]
rs17046827	0.91[EUR][1000 genomes]
rs17046850	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs17046853	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17046857	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs17046858	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs17046863	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs17046866	0.86[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs17503409	0.91[EUR][1000 genomes]
rs17503436	0.91[EUR][1000 genomes]
rs17503589	0.91[EUR][1000 genomes]
rs17503652	0.91[EUR][1000 genomes]
rs17587826	0.83[EUR][1000 genomes]
rs17587847	0.91[EUR][1000 genomes]
rs17587875	0.91[EUR][1000 genomes]
rs17587980	0.91[EUR][1000 genomes]
rs17588001	0.91[EUR][1000 genomes]
rs17588022	0.91[EUR][1000 genomes]
rs17588043	0.91[EUR][1000 genomes]
rs17588175	0.89[EUR][1000 genomes]
rs17632054	0.94[EUR][1000 genomes]
rs28433075	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs28446688	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs28493919	0.91[EUR][1000 genomes]
rs28537958	0.91[EUR][1000 genomes]
rs28569800	0.91[EUR][1000 genomes]
rs28581927	0.91[EUR][1000 genomes]
rs28593748	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs28630955	0.91[EUR][1000 genomes]
rs28654153	0.83[EUR][1000 genomes]
rs28804534	0.88[AFR][1000 genomes];0.89[ASN][1000 genomes]
rs28830530	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs28840454	0.87[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs28843991	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs4543072	0.91[EUR][1000 genomes]
rs4690822	0.86[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs56132817	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs57824468	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs57871041	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs58613470	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs59204772	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs60780596	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs60804251	0.90[ASN][1000 genomes]
rs60929286	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs61418960	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6823066	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6823367	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6831861	0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6832118	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6832663	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs6837884	0.88[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs6848967	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs6854166	0.98[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6857290	0.87[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs72689403	0.91[EUR][1000 genomes]
rs72689404	0.91[EUR][1000 genomes]
rs72689405	0.91[EUR][1000 genomes]
rs72689406	0.89[EUR][1000 genomes]
rs72689409	0.91[EUR][1000 genomes]
rs72689410	0.91[EUR][1000 genomes]
rs72689413	0.91[EUR][1000 genomes]
rs72689414	0.91[EUR][1000 genomes]
rs72689415	0.91[EUR][1000 genomes]
rs72689416	0.91[EUR][1000 genomes]
rs72689419	0.91[EUR][1000 genomes]
rs72689420	0.91[EUR][1000 genomes]
rs72689422	0.86[EUR][1000 genomes]
rs72689423	0.91[EUR][1000 genomes]
rs72689424	0.91[EUR][1000 genomes]
rs72689425	0.91[EUR][1000 genomes]
rs72689427	0.91[EUR][1000 genomes]
rs72689428	0.91[EUR][1000 genomes]
rs72689439	0.94[EUR][1000 genomes]
rs72689440	0.94[EUR][1000 genomes]
rs72689441	0.94[EUR][1000 genomes]
rs72689442	0.94[EUR][1000 genomes]
rs72705441	0.83[EUR][1000 genomes]
rs72705449	0.83[EUR][1000 genomes]
rs72705451	0.89[EUR][1000 genomes]
rs72705452	0.89[EUR][1000 genomes]
rs72705454	0.91[EUR][1000 genomes]
rs72705456	0.91[EUR][1000 genomes]
rs72705458	0.91[EUR][1000 genomes]
rs72705460	0.91[EUR][1000 genomes]
rs73863211	0.80[ASN][1000 genomes]
rs73863231	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs73863236	0.89[ASN][1000 genomes]
rs73863238	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs73863239	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs73863240	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9308110	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9308111	0.88[AFR][1000 genomes];0.90[ASN][1000 genomes]
rs9308113	0.88[AFR][1000 genomes];0.91[ASN][1000 genomes]
rs9996760	0.91[EUR][1000 genomes]
rs9999778	0.91[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	nsv830141	chr4:166502908-166689626	Enhancers Flanking Active TSS Weak transcription Active TSS ZNF genes & repeats Strong transcription Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:26 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:166525400-166533800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
2	chr4:166525600-166539200	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
3	chr4:166530400-166536000	Enhancers	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr4:166530600-166532600	Enhancers	Colon Smooth Muscle	Colon
5	chr4:166530600-166534200	Enhancers	HUES48 Cell Line	embryonic stem cell
6	chr4:166530600-166535400	Enhancers	iPS-18 Cell Line	embryonic stem cell
7	chr4:166530800-166533000	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr4:166530800-166535200	Enhancers	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr4:166531200-166533600	Weak transcription	H1 Cell Line	embryonic stem cell
10	chr4:166531400-166533800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr4:166531400-166534200	Weak transcription	H9 Cell Line	embryonic stem cell
12	chr4:166531600-166532600	Flanking Active TSS	Primary hematopoietic stem cells G-CSF-mobilized Male	--
13	chr4:166531600-166533800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
14	chr4:166531600-166536000	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
15	chr4:166531800-166533600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
16	chr4:166532000-166532600	Enhancers	HUES6 Cell Line	embryonic stem cell
17	chr4:166532000-166532600	Active TSS	Primary hematopoietic stem cells short term culture	blood
18	chr4:166532000-166534400	Enhancers	Cortex derived primary cultured neurospheres	brain
19	chr4:166532200-166532600	Enhancers	Adipose Nuclei	Adipose
20	chr4:166532200-166533800	Enhancers	iPS-20b Cell Line	embryonic stem cell
21	chr4:166532200-166534800	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
22	chr4:166532400-166532800	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
23	chr4:166532400-166533000	Enhancers	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
24	chr4:166532400-166533400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr4:166532400-166533400	Weak transcription	Fetal Kidney	kidney
26	chr4:166532400-166533600	Weak transcription	Rectal Smooth Muscle	rectum

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