Variant report

Variant	rs3778035
Chromosome Location	chr6:100868009-100868010
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:100867794..100869514-chr6:100873709..100875237,2	K562	blood:

Variant related genes	Relation type
ENSG00000228082	Chromatin interaction

Extended variants
information (count: 22 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:18)

rs_ID	r²[population]
rs17060510	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17060534	0.89[CEU][hapmap];1.00[CHB][hapmap];0.90[CHD][hapmap];1.00[GIH][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17060562	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs2295595	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[JPT][hapmap];0.86[MEX][hapmap];1.00[MKK][hapmap];0.83[EUR][1000 genomes]
rs3778036	0.89[CEU][hapmap];0.94[CHB][hapmap];0.87[CHD][hapmap];0.90[JPT][hapmap];1.00[MEX][hapmap];0.87[TSI][hapmap];0.89[EUR][1000 genomes]
rs3798500	0.89[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.85[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs3798504	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.91[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3798508	1.00[CHB][hapmap];0.84[CHD][hapmap];1.00[JPT][hapmap];0.86[ASN][1000 genomes]
rs3798511	0.89[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3798513	0.89[CEU][hapmap];1.00[CHB][hapmap];0.90[JPT][hapmap];0.89[EUR][1000 genomes]
rs3798515	0.89[CEU][hapmap];1.00[CHB][hapmap];0.87[CHD][hapmap];0.90[JPT][hapmap];0.86[MEX][hapmap];0.83[EUR][1000 genomes]
rs55877300	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs62420413	0.83[EUR][1000 genomes]
rs62420428	0.89[EUR][1000 genomes]
rs62420433	1.00[AFR][1000 genomes];0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6909828	0.83[EUR][1000 genomes]
rs72935895	0.88[EUR][1000 genomes]
rs72937818	0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv949535	chr6:100740293-101469052	Strong transcription Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Bivalent Enhancer Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	16 gene(s)	inside rSNPs	diseases
2	nsv1028122	chr6:100774245-100964347	Enhancers Bivalent Enhancer Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Active TSS Weak transcription Flanking Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
3	nsv1023710	chr6:100810738-101001115	Weak transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Enhancers Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 gene(s)	inside rSNPs	diseases
4	nsv538388	chr6:100810738-101001115	Flanking Active TSS Weak transcription Bivalent/Poised TSS Strong transcription Bivalent Enhancer Enhancers Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	5 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	chr6:100831200-100874000	Weak transcription	Muscle Satellite Cultured Cells	--
2	chr6:100838400-100874800	Weak transcription	Psoas Muscle	Psoas
3	chr6:100839400-100874200	Weak transcription	HSMM	muscle
4	chr6:100852200-100871200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
5	chr6:100856800-100874800	Weak transcription	Fetal Muscle Leg	muscle
6	chr6:100862200-100890600	Weak transcription	Adipose Nuclei	Adipose
7	chr6:100863000-100894600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
8	chr6:100864000-100868200	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
9	chr6:100864000-100887000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
10	chr6:100864200-100870400	Weak transcription	Pancreatic Islets	Pancreatic Islet
11	chr6:100864400-100869600	Weak transcription	Fetal Intestine Small	intestine
12	chr6:100865600-100869600	Weak transcription	Fetal Intestine Large	intestine
13	chr6:100867400-100889000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
14	chr6:100867600-100869000	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
15	chr6:100867800-100868600	Enhancers	iPS-20b Cell Line	embryonic stem cell
16	chr6:100867800-100868800	Enhancers	H9 Cell Line	embryonic stem cell
17	chr6:100867800-100869000	Enhancers	ES-WA7 Cell Line	embryonic stem cell
18	chr6:100867800-100869000	Enhancers	H1 Cell Line	embryonic stem cell
19	chr6:100867800-100869400	Enhancers	ES-I3 Cell Line	embryonic stem cell
20	chr6:100868000-100868400	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell
21	chr6:100868000-100869200	Enhancers	HUES64 Cell Line	embryonic stem cell
22	chr6:100868000-100869200	Enhancers	iPS-15b Cell Line	embryonic stem cell
23	chr6:100868000-100869400	Enhancers	HUES48 Cell Line	embryonic stem cell
24	chr6:100868000-100869600	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
25	chr6:100868000-100869600	Enhancers	HUES6 Cell Line	embryonic stem cell
26	chr6:100868000-100869600	Enhancers	iPS-18 Cell Line	embryonic stem cell

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