Variant report

Variant	rs10447398
Chromosome Location	chr6:38656329-38656330
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr6:38654910..38656632-chr6:38669510..38672472,2	MCF-7	breast:
2	chr6:38654849..38657579-chr6:38658333..38661175,3	K562	blood:
3	chr6:38649077..38650795-chr6:38654620..38657310,2	K562	blood:
4	chr6:38655259..38657070-chr6:38659864..38662017,2	K562	blood:

Variant related genes	Relation type
ENSG00000124767	Chromatin interaction

Extended variants
information (count: 26 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:19)

rs_ID	r²[population]
rs10484854	0.82[ASN][1000 genomes]
rs1049346	0.95[YRI][hapmap]
rs12191152	0.82[ASN][1000 genomes]
rs12198212	0.82[ASN][1000 genomes]
rs12198690	0.89[EUR][1000 genomes]
rs12214452	0.82[ASN][1000 genomes]
rs12214815	0.84[CEU][hapmap];0.85[CHB][hapmap];0.86[AMR][1000 genomes];0.91[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs17544777	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs17622097	0.84[CEU][hapmap];0.85[CHB][hapmap];0.84[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1781735	0.95[YRI][hapmap]
rs4527687	0.87[EUR][1000 genomes]
rs4746	0.88[AFR][1000 genomes];0.88[EUR][1000 genomes]
rs55784543	0.82[ASN][1000 genomes]
rs56228867	0.90[EUR][1000 genomes]
rs6458064	0.87[EUR][1000 genomes]
rs66858749	0.85[EUR][1000 genomes]
rs7747615	0.84[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs937662	0.83[CEU][hapmap];0.86[EUR][1000 genomes]
rs9380767	0.87[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:7 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1021991	chr6:37893949-38738720	Weak transcription Enhancers Strong transcription Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	20 gene(s)	inside rSNPs	diseases
2	nsv885817	chr6:38036420-39019503	Enhancers Weak transcription Flanking Active TSS Bivalent/Poised TSS Strong transcription Active TSS Genic enhancers ZNF genes & repeats Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	26 gene(s)	inside rSNPs	diseases
3	esv2758049	chr6:38588969-38711085	Strong transcription Enhancers Weak transcription Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS Flanking Active TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
4	esv2759421	chr6:38588969-38711085	Flanking Active TSS Strong transcription Enhancers Weak transcription Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
5	nsv427754	chr6:38588969-38711085	Flanking Active TSS Strong transcription Enhancers ZNF genes & repeats Bivalent Enhancer Weak transcription Active TSS Bivalent/Poised TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
6	nsv428144	chr6:38588969-38711085	Enhancers Active TSS Weak transcription Flanking Active TSS Flanking Bivalent TSS/Enh ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
7	nsv830642	chr6:38645056-38800657	Weak transcription Enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:112 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:38641200-38670000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
2	chr6:38641600-38668000	Weak transcription	NHLF	lung
3	chr6:38642000-38657600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr6:38642200-38656400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
5	chr6:38642400-38657000	Strong transcription	H9 Derived Neuron Cultured Cells	ES cell derived
6	chr6:38642400-38660000	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
7	chr6:38642400-38665600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
8	chr6:38642800-38658000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr6:38642800-38669800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
10	chr6:38645000-38656600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
11	chr6:38646000-38670000	Weak transcription	A549	lung
12	chr6:38646600-38656400	Weak transcription	Colonic Mucosa	Colon
13	chr6:38646600-38656400	Weak transcription	Spleen	Spleen
14	chr6:38646600-38663400	Weak transcription	Esophagus	oesophagus
15	chr6:38646800-38656400	Weak transcription	Colon Smooth Muscle	Colon
16	chr6:38646800-38656400	Weak transcription	Fetal Brain Female	brain
17	chr6:38646800-38656400	Weak transcription	Gastric	stomach
18	chr6:38646800-38668200	Weak transcription	Primary T cells from cord blood	blood
19	chr6:38647200-38657000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
20	chr6:38647200-38659000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
21	chr6:38647400-38656400	Weak transcription	Thymus	Thymus
22	chr6:38648800-38669800	Weak transcription	Skeletal Muscle Male	skeletal muscle
23	chr6:38649200-38656400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr6:38650200-38656400	Weak transcription	Cortex derived primary cultured neurospheres	brain
25	chr6:38650200-38656400	Weak transcription	Fetal Muscle Trunk	muscle
26	chr6:38650200-38663400	Weak transcription	HUVEC	blood vessel
27	chr6:38650200-38666600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
28	chr6:38650800-38666400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr6:38651000-38656400	Weak transcription	Fetal Brain Male	brain
30	chr6:38651000-38656400	Weak transcription	Skeletal Muscle Female	skeletal muscle
31	chr6:38651000-38656600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
32	chr6:38651000-38667800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
33	chr6:38651200-38656400	Weak transcription	Primary monocytes fromperipheralblood	blood
34	chr6:38651200-38656400	Weak transcription	Duodenum Smooth Muscle	Duodenum
35	chr6:38651200-38656400	Weak transcription	Rectal Mucosa Donor 31	rectum
36	chr6:38651200-38657400	Weak transcription	Fetal Intestine Large	intestine
37	chr6:38651200-38665800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
38	chr6:38651200-38667800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
39	chr6:38651200-38668000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
40	chr6:38651200-38668000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
41	chr6:38651200-38669800	Weak transcription	HSMM	muscle
42	chr6:38651200-38670000	Weak transcription	Fetal Kidney	kidney
43	chr6:38651400-38656600	Weak transcription	Stomach Smooth Muscle	stomach
44	chr6:38651400-38656800	Weak transcription	Fetal Thymus	thymus
45	chr6:38651400-38659000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
46	chr6:38651400-38669400	Weak transcription	Osteobl	bone
47	chr6:38652000-38656400	Weak transcription	Lung	lung
48	chr6:38652000-38666600	Weak transcription	Fetal Intestine Small	intestine
49	chr6:38652000-38668000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr6:38652200-38662200	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin

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