Variant report

Variant	rs10034509
Chromosome Location	chr4:74440860-74440861
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:27)

rs_ID	r²[population]
rs10000698	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10011693	1.00[AMR][1000 genomes]
rs10015321	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10015884	1.00[AMR][1000 genomes]
rs10032183	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs10049835	0.95[YRI][hapmap];1.00[AMR][1000 genomes]
rs1105321	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs12331864	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs1528916	0.81[YRI][hapmap]
rs1528918	0.88[YRI][hapmap]
rs1528922	0.83[AMR][1000 genomes]
rs16849498	0.89[ASW][hapmap];0.87[LWK][hapmap];0.88[MKK][hapmap];0.90[YRI][hapmap];1.00[AMR][1000 genomes]
rs16849677	0.80[YRI][hapmap]
rs2367164	1.00[AMR][1000 genomes]
rs28533985	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28562313	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28570600	1.00[AMR][1000 genomes]
rs28649464	0.80[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28651748	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs28755465	0.83[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs34123018	0.88[AFR][1000 genomes]
rs3822100	0.90[YRI][hapmap]
rs6831133	1.00[AMR][1000 genomes]
rs7356389	1.00[AMR][1000 genomes]
rs7790	0.80[YRI][hapmap]
rs9291186	1.00[AMR][1000 genomes]
rs9995788	1.00[YRI][hapmap];0.94[AFR][1000 genomes];1.00[AMR][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	nsv1001725	chr4:74354050-74860924	Enhancers Weak transcription Active TSS Flanking Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Strong transcription Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	27 gene(s)	inside rSNPs	diseases
2	nsv530126	chr4:74376622-74843892	Bivalent Enhancer Enhancers Weak transcription ZNF genes & repeats Flanking Active TSS Bivalent/Poised TSS Genic enhancers Flanking Bivalent TSS/Enh Active TSS Strong transcription Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	22 gene(s)	inside rSNPs	diseases
3	esv1792624	chr4:74437054-74453857	Enhancers Weak transcription Strong transcription Genic enhancers Flanking Active TSS ZNF genes & repeats	Chromatin interactive region lncRNA miRNA target site	n/a	inside rSNPs	diseases

No data

Chromatin state (count:21 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr4:74438000-74464800	Weak transcription	Sigmoid Colon	Sigmoid Colon
2	chr4:74439000-74448400	Weak transcription	Fetal Intestine Large	intestine
3	chr4:74439400-74442200	Enhancers	Muscle Satellite Cultured Cells	--
4	chr4:74439600-74441200	Genic enhancers	Fetal Thymus	thymus
5	chr4:74439800-74448600	Weak transcription	Rectal Mucosa Donor 31	rectum
6	chr4:74440200-74441000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
7	chr4:74440200-74441400	Weak transcription	HMEC	breast
8	chr4:74440200-74441800	Weak transcription	Breast Myoepithelial Primary Cells	Breast
9	chr4:74440200-74442200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
10	chr4:74440200-74443000	Weak transcription	Stomach Mucosa	stomach
11	chr4:74440200-74443200	Strong transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr4:74440200-74444600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
13	chr4:74440200-74447000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr4:74440200-74447000	Weak transcription	Thymus	Thymus
15	chr4:74440200-74449000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
16	chr4:74440200-74449600	Weak transcription	H9 Cell Line	embryonic stem cell
17	chr4:74440200-74451200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
18	chr4:74440200-74455200	Weak transcription	Fetal Intestine Small	intestine
19	chr4:74440200-74457400	Weak transcription	Pancreas	Pancrea
20	chr4:74440200-74472600	Weak transcription	Gastric	stomach
21	chr4:74440400-74442000	Weak transcription	Dnd41	blood

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