Variant report

Variant	rs6825089
Chromosome Location	chr4:79088048-79088049
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 52 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:46)

rs_ID	r²[population]
rs10000651	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs10002604	0.91[EUR][1000 genomes]
rs10003965	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10004159	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10005735	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10005862	0.88[EUR][1000 genomes]
rs10007371	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10008931	0.93[ASN][1000 genomes]
rs10025194	0.81[ASN][1000 genomes]
rs10025611	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10025977	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10026268	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10028988	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10518194	1.00[CEU][hapmap];0.93[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs13127746	0.91[EUR][1000 genomes]
rs13133346	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs13136410	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs1317018	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs16997130	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs17420859	1.00[CHB][hapmap]
rs1878437	0.81[ASN][1000 genomes]
rs2078481	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28409486	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs28597965	0.81[ASN][1000 genomes]
rs2867004	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2867008	0.93[ASN][1000 genomes]
rs28671092	0.89[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28750077	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2903452	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs34237418	1.00[CHB][hapmap]
rs34552897	0.88[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs35060393	0.96[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs35374567	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs55690666	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs56368720	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs58970756	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs66631138	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs6838661	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs6840357	0.81[ASN][1000 genomes]
rs6858810	0.81[ASN][1000 genomes]
rs7670625	0.81[ASN][1000 genomes]
rs7673873	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7677432	0.81[ASN][1000 genomes]
rs7681238	0.81[ASN][1000 genomes]
rs7695979	0.81[ASN][1000 genomes]
rs7699120	0.90[EUR][1000 genomes];0.81[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv534024	chr4:78785189-79437403	ZNF genes & repeats Flanking Active TSS Enhancers Active TSS Weak transcription Strong transcription Bivalent Enhancer Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	18 gene(s)	inside rSNPs	diseases
2	nsv1009633	chr4:78887573-79652236	Weak transcription Strong transcription Enhancers Flanking Active TSS Genic enhancers Bivalent/Poised TSS Bivalent Enhancer Active TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	41 gene(s)	inside rSNPs	diseases
3	nsv525530	chr4:79024524-79266563	Enhancers Weak transcription ZNF genes & repeats Genic enhancers Strong transcription Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	5 gene(s)	inside rSNPs	diseases
4	nsv879502	chr4:79052851-79144309	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
5	nsv1010782	chr4:79057839-79387207	Weak transcription Enhancers Strong transcription ZNF genes & repeats Genic enhancers Flanking Active TSS Active TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	6 gene(s)	inside rSNPs	diseases
6	nsv829977	chr4:79082318-79110300	Enhancers Weak transcription Flanking Active TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer	TF binding region CpG island Chromatin interactive region	3 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	chr4:79071400-79096600	Weak transcription	Pancreas	Pancrea
2	chr4:79078200-79094200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr4:79078400-79095600	Weak transcription	Psoas Muscle	Psoas
4	chr4:79083800-79093000	Weak transcription	Fetal Heart	heart
5	chr4:79084200-79091400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
6	chr4:79084200-79091400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
7	chr4:79084200-79091800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr4:79084200-79093000	Weak transcription	H9 Cell Line	embryonic stem cell
9	chr4:79085000-79093000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
10	chr4:79085400-79088600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
11	chr4:79086400-79089400	Enhancers	Fetal Intestine Large	intestine
12	chr4:79086400-79089600	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
13	chr4:79086600-79089000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
14	chr4:79086600-79089200	Weak transcription	HUES64 Cell Line	embryonic stem cell
15	chr4:79086600-79089200	Enhancers	Fetal Intestine Small	intestine
16	chr4:79086600-79091200	Weak transcription	HUES48 Cell Line	embryonic stem cell
17	chr4:79087000-79089200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
18	chr4:79087200-79090200	Enhancers	HepG2	liver
19	chr4:79087200-79092800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr4:79087400-79088200	Enhancers	Rectal Mucosa Donor 31	rectum
21	chr4:79087400-79088400	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
22	chr4:79087400-79088600	Enhancers	Primary hematopoietic stem cells short term culture	blood
23	chr4:79087400-79088600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr4:79087800-79088200	Enhancers	Dnd41	blood
25	chr4:79087800-79089600	Enhancers	H1 Cell Line	embryonic stem cell

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