Variant report

Variant	rs13103583
Chromosome Location	chr4:106866164-106866165
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

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

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

rs_ID	r²[population]
rs10014558	0.84[AFR][1000 genomes]
rs10033065	0.97[AFR][1000 genomes];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs10856978	1.00[CEU][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs11097904	0.87[AFR][1000 genomes]
rs11930350	1.00[CEU][hapmap];0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs12511099	0.86[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13107002	0.80[AFR][1000 genomes];0.91[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs13120676	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs28420290	0.85[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs4074126	0.97[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4074127	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4074792	0.96[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs4235416	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4264830	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4340795	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4380529	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4380530	0.95[AFR][1000 genomes];0.85[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs4394002	0.88[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4403054	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4443288	0.93[ASW][hapmap];0.89[CEU][hapmap];1.00[GIH][hapmap];0.97[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4488941	0.92[AFR][1000 genomes];0.88[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4507363	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[GIH][hapmap];1.00[LWK][hapmap];1.00[MEX][hapmap];1.00[MKK][hapmap];1.00[TSI][hapmap];0.92[YRI][hapmap];0.94[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4511999	1.00[CEU][hapmap];0.89[YRI][hapmap];0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4546247	0.88[EUR][1000 genomes]
rs4616757	0.85[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4635819	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs4699202	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs58168413	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6533223	1.00[CEU][hapmap];0.92[YRI][hapmap]
rs6826426	0.86[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs6838274	1.00[CEU][hapmap];0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7669108	0.81[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7673502	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes]
rs7677312	1.00[CEU][hapmap];1.00[EUR][1000 genomes]
rs7696538	0.89[CEU][hapmap];0.88[YRI][hapmap];0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];1.00[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	nsv1014993	chr4:106796019-106980727	Enhancers Flanking Bivalent TSS/Enh Weak transcription Bivalent/Poised TSS Bivalent Enhancer Strong transcription Active TSS Genic enhancers Flanking Active TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA	9 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	chr4:106831600-106878200	Weak transcription	Rectal Mucosa Donor 29	rectum
2	chr4:106837600-106867600	Weak transcription	Sigmoid Colon	Sigmoid Colon
3	chr4:106843600-106888400	Weak transcription	Pancreas	Pancrea
4	chr4:106851200-106871800	Weak transcription	Esophagus	oesophagus
5	chr4:106853000-106879000	Weak transcription	Fetal Stomach	stomach
6	chr4:106854000-106866600	Weak transcription	Fetal Intestine Small	intestine
7	chr4:106854400-106886800	Weak transcription	GM12878-XiMat	blood
8	chr4:106854600-106866400	Weak transcription	Duodenum Mucosa	Duodenum
9	chr4:106858400-106871800	Weak transcription	Lung	lung
10	chr4:106859400-106868800	Strong transcription	Fetal Intestine Large	intestine
11	chr4:106861800-106867600	Weak transcription	Aorta	Aorta
12	chr4:106862400-106867400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr4:106864400-106877200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
14	chr4:106864600-106867000	Enhancers	Fetal Heart	heart
15	chr4:106864600-106878200	Weak transcription	Rectal Mucosa Donor 31	rectum
16	chr4:106864800-106886600	Weak transcription	Fetal Kidney	kidney
17	chr4:106865200-106868000	Enhancers	HSMMtube	muscle
18	chr4:106865200-106871600	Weak transcription	Fetal Muscle Leg	muscle
19	chr4:106865400-106866200	Enhancers	NHDF-Ad	bronchial
20	chr4:106865400-106866400	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
21	chr4:106865400-106866400	Enhancers	HSMM	muscle
22	chr4:106865800-106866200	Enhancers	Breast Myoepithelial Primary Cells	Breast
23	chr4:106865800-106866200	Enhancers	Fetal Lung	lung
24	chr4:106865800-106866200	Enhancers	Osteobl	bone
25	chr4:106865800-106866600	Weak transcription	Cortex derived primary cultured neurospheres	brain
26	chr4:106866000-106866400	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived

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