Variant report

Variant	rs6915298
Chromosome Location	chr6:149370158-149370159
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr6:149368823..149370387-chr6:149804735..149807100,2	K562	blood:

Variant related genes	Relation type
ENSG00000178199	Chromatin interaction

Extended variants
information (count: 53 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:49)

rs_ID	r²[population]
rs10457074	0.91[CEU][hapmap];1.00[CHB][hapmap];0.94[CHD][hapmap];0.95[GIH][hapmap];1.00[JPT][hapmap];0.92[MEX][hapmap];0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs10872629	0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10872630	0.81[JPT][hapmap]
rs10872631	0.87[JPT][hapmap]
rs11755147	0.87[JPT][hapmap]
rs11759315	0.86[JPT][hapmap]
rs12201653	0.87[JPT][hapmap]
rs12211152	0.93[JPT][hapmap]
rs1317171	1.00[ASW][hapmap];1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];1.00[TSI][hapmap];1.00[YRI][hapmap];0.82[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1320575	0.88[AMR][1000 genomes];0.84[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs17669693	0.87[JPT][hapmap]
rs17732007	0.87[JPT][hapmap]
rs1934217	0.91[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs1934220	0.87[JPT][hapmap]
rs2275423	0.86[CEU][hapmap]
rs2340752	0.86[CEU][hapmap]
rs2340798	0.91[CEU][hapmap];0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs2340801	0.86[CEU][hapmap]
rs2340802	0.82[CEU][hapmap];0.86[GIH][hapmap];0.96[MEX][hapmap]
rs4318907	0.86[CEU][hapmap];0.96[MEX][hapmap];0.80[AMR][1000 genomes]
rs4897074	0.91[CEU][hapmap]
rs4897078	0.87[JPT][hapmap]
rs6570920	0.86[CEU][hapmap];0.80[AMR][1000 genomes]
rs6570933	0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6570934	0.90[AMR][1000 genomes];0.81[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs6570935	0.89[AMR][1000 genomes];0.84[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs6901019	0.86[CEU][hapmap];0.85[CHB][hapmap];1.00[JPT][hapmap];0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6901863	0.88[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs6903827	0.87[JPT][hapmap]
rs6931675	0.91[CEU][hapmap];0.90[CHB][hapmap];0.84[CHD][hapmap];0.96[MEX][hapmap];0.90[MKK][hapmap];0.95[TSI][hapmap];0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6931744	0.82[CEU][hapmap];0.91[GIH][hapmap];0.92[MEX][hapmap]
rs6932386	0.87[JPT][hapmap]
rs6935330	0.82[CEU][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.98[TSI][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6936176	0.91[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6939103	0.87[JPT][hapmap]
rs7738162	0.95[CEU][hapmap];0.85[CHB][hapmap];1.00[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs7747463	0.90[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.94[ASN][1000 genomes]
rs7748978	0.88[MEX][hapmap]
rs7756263	0.81[JPT][hapmap]
rs7760242	0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7761119	0.86[CEU][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];0.96[MEX][hapmap];0.90[MKK][hapmap];0.87[TSI][hapmap];0.90[AMR][1000 genomes];0.85[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs7765778	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.80[AMR][1000 genomes];0.90[ASN][1000 genomes]
rs7772696	0.87[JPT][hapmap]
rs7774887	0.86[CEU][hapmap]
rs7776117	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.83[AFR][1000 genomes];0.96[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs9285516	0.86[CEU][hapmap];0.85[CHB][hapmap];0.97[CHD][hapmap];1.00[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.93[MKK][hapmap];0.98[TSI][hapmap];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs9322166	0.94[JPT][hapmap];0.84[AMR][1000 genomes];0.88[ASN][1000 genomes]
rs9377187	0.86[CEU][hapmap]
rs9377188	0.92[MEX][hapmap]

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	nsv1032690	chr6:149206106-149398712	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases
2	nsv1032319	chr6:149271433-149550525	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 lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
3	nsv538470	chr6:149271433-149550525	Enhancers Weak transcription Active TSS Strong transcription Flanking Active TSS ZNF genes & repeats Bivalent Enhancer Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	15 gene(s)	inside rSNPs	diseases
4	nsv830842	chr6:149272321-149427340	Enhancers Bivalent Enhancer ZNF genes & repeats Weak transcription Flanking Active TSS Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs6915298	C6orf97	cis	cerebellum	SCAN

Chromatin state (count:68 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:149305400-149381400	Weak transcription	Gastric	stomach
2	chr6:149354400-149400600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr6:149354600-149372000	Weak transcription	Cortex derived primary cultured neurospheres	brain
4	chr6:149355800-149381600	Weak transcription	Right Atrium	heart
5	chr6:149359200-149372000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
6	chr6:149359200-149380200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
7	chr6:149359200-149380200	Weak transcription	Fetal Muscle Trunk	muscle
8	chr6:149359200-149381400	Weak transcription	Rectal Smooth Muscle	rectum
9	chr6:149359200-149381400	Weak transcription	Stomach Smooth Muscle	stomach
10	chr6:149359200-149381600	Weak transcription	Ovary	ovary
11	chr6:149359200-149383600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
12	chr6:149359400-149379200	Weak transcription	Fetal Lung	lung
13	chr6:149359600-149380200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
14	chr6:149362600-149385200	Weak transcription	Aorta	Aorta
15	chr6:149362800-149372000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
16	chr6:149362800-149401400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
17	chr6:149363000-149380800	Weak transcription	Fetal Stomach	stomach
18	chr6:149363200-149394000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr6:149365600-149371400	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:149366800-149370800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
21	chr6:149367400-149371800	Enhancers	Muscle Satellite Cultured Cells	--
22	chr6:149367400-149376000	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
23	chr6:149367600-149370800	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
24	chr6:149367600-149380200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
25	chr6:149368200-149370600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr6:149368200-149372000	Weak transcription	H9 Cell Line	embryonic stem cell
27	chr6:149368200-149373600	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
28	chr6:149368200-149374800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
29	chr6:149368200-149375000	Weak transcription	Primary T cells fromperipheralblood	blood
30	chr6:149368200-149376000	Weak transcription	Rectal Mucosa Donor 29	rectum
31	chr6:149368200-149380400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
32	chr6:149368200-149380400	Weak transcription	Spleen	Spleen
33	chr6:149368200-149381400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
34	chr6:149368200-149381800	Weak transcription	Small Intestine	intestine
35	chr6:149368400-149375000	Weak transcription	Fetal Thymus	thymus
36	chr6:149368600-149380400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr6:149368800-149371600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
38	chr6:149368800-149372400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
39	chr6:149368800-149375200	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
40	chr6:149368800-149376200	Weak transcription	Primary B cells from cord blood	blood
41	chr6:149368800-149377000	Weak transcription	Primary hematopoietic stem cells	blood
42	chr6:149368800-149380200	Weak transcription	HUES6 Cell Line	embryonic stem cell
43	chr6:149369000-149370800	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
44	chr6:149369000-149372200	Weak transcription	HUES64 Cell Line	embryonic stem cell
45	chr6:149369000-149374400	Weak transcription	Dnd41	blood
46	chr6:149369000-149375000	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
47	chr6:149369000-149375200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
48	chr6:149369000-149375800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
49	chr6:149369000-149379200	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
50	chr6:149369000-149382000	Weak transcription	NHDF-Ad	bronchial

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