Variant report

Variant	rs6910782
Chromosome Location	chr6:119254156-119254157
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:9)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:9 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:119213694..119219544-chr6:119251621..119258172,21	K562	blood:
2	chr6:119251278..119254603-chr6:119254723..119256647,5	MCF-7	breast:
3	chr6:119253156..119256806-chr6:119394976..119399977,7	K562	blood:
4	chr6:119242613..119249110-chr6:119251513..119257145,6	MCF-7	breast:
5	chr6:119230403..119232175-chr6:119251881..119254660,2	K562	blood:
6	chr6:119252974..119255408-chr6:119376994..119379902,2	K562	blood:
7	chr6:119214552..119219906-chr6:119253918..119257622,8	MCF-7	breast:
8	chr6:119253238..119258280-chr6:119398045..119402661,8	K562	blood:
9	chr6:119213105..119220728-chr6:119253299..119257962,22	K562	blood:

No data

Variant related genes	Relation type
ENSG00000111879	Chromatin interaction
ENSG00000111875	Chromatin interaction
ENSG00000222649	Chromatin interaction
ENSG00000111877	Chromatin interaction
ENSG00000253194	Chromatin interaction

Extended variants
information (count: 75 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:73)

rs_ID	r²[population]
rs1022706	0.84[EUR][1000 genomes]
rs1022707	0.84[CEU][hapmap];0.85[MEX][hapmap];0.84[EUR][1000 genomes]
rs1022708	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs1022709	0.83[EUR][1000 genomes]
rs11153782	0.89[CEU][hapmap];0.83[EUR][1000 genomes]
rs11965951	0.84[EUR][1000 genomes]
rs11967231	0.83[EUR][1000 genomes]
rs11967232	0.83[EUR][1000 genomes]
rs1807979	0.83[EUR][1000 genomes]
rs1885125	0.89[CEU][hapmap];0.90[MEX][hapmap]
rs2145569	0.89[CEU][hapmap];0.90[MEX][hapmap];0.83[EUR][1000 genomes]
rs2145570	0.83[EUR][1000 genomes]
rs2180860	0.83[EUR][1000 genomes]
rs35906538	0.83[EUR][1000 genomes]
rs3945959	0.83[EUR][1000 genomes]
rs4245502	0.83[EUR][1000 genomes]
rs4946369	0.84[EUR][1000 genomes]
rs4946370	0.82[EUR][1000 genomes]
rs4946372	0.89[CEU][hapmap];0.85[MEX][hapmap];0.83[EUR][1000 genomes]
rs4946373	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs4946374	0.83[EUR][1000 genomes]
rs4946376	0.83[EUR][1000 genomes]
rs4946377	0.84[EUR][1000 genomes]
rs4946378	0.83[EUR][1000 genomes]
rs4946380	0.83[EUR][1000 genomes]
rs55978448	0.82[EUR][1000 genomes]
rs62422265	0.82[EUR][1000 genomes]
rs62422269	0.82[EUR][1000 genomes]
rs6569035	0.83[EUR][1000 genomes]
rs6901738	0.83[EUR][1000 genomes]
rs6903220	0.83[EUR][1000 genomes]
rs6903579	0.83[EUR][1000 genomes]
rs6904381	0.89[CEU][hapmap];0.85[MEX][hapmap];0.83[EUR][1000 genomes]
rs6910377	0.83[EUR][1000 genomes]
rs6916672	0.83[EUR][1000 genomes]
rs6918569	0.89[CEU][hapmap];0.84[EUR][1000 genomes]
rs6918844	0.92[CEU][hapmap];0.83[EUR][1000 genomes]
rs6919100	0.84[EUR][1000 genomes]
rs6923637	0.83[EUR][1000 genomes]
rs6923771	0.83[EUR][1000 genomes]
rs6928315	0.83[EUR][1000 genomes]
rs6928945	0.83[EUR][1000 genomes]
rs6933970	0.83[EUR][1000 genomes]
rs6935960	0.96[CEU][hapmap];0.88[JPT][hapmap];0.83[EUR][1000 genomes]
rs6939937	0.88[CEU][hapmap];0.83[EUR][1000 genomes]
rs6940120	0.83[EUR][1000 genomes]
rs7381533	0.82[EUR][1000 genomes]
rs7381535	0.88[CEU][hapmap];0.90[MEX][hapmap];0.80[EUR][1000 genomes]
rs7381546	0.83[EUR][1000 genomes]
rs7758729	0.83[EUR][1000 genomes]
rs7758849	0.83[EUR][1000 genomes]
rs7758862	0.83[EUR][1000 genomes]
rs7759423	0.83[EUR][1000 genomes]
rs9320669	0.84[EUR][1000 genomes]
rs9320670	0.84[EUR][1000 genomes]
rs9320671	0.89[CEU][hapmap];0.85[MEX][hapmap];0.84[EUR][1000 genomes]
rs9374759	0.83[EUR][1000 genomes]
rs9374763	0.83[EUR][1000 genomes]
rs9374764	0.82[EUR][1000 genomes]
rs9374765	0.82[EUR][1000 genomes]
rs9374767	0.82[EUR][1000 genomes]
rs9385060	0.83[EUR][1000 genomes]
rs9385063	0.83[EUR][1000 genomes]
rs9387610	0.83[EUR][1000 genomes]
rs9387612	0.83[EUR][1000 genomes]
rs9387613	0.83[EUR][1000 genomes]
rs9401103	0.83[EUR][1000 genomes]
rs9401106	0.89[CEU][hapmap];0.82[EUR][1000 genomes]
rs9489563	0.83[EUR][1000 genomes]
rs9489569	0.83[EUR][1000 genomes]
rs9689589	0.84[EUR][1000 genomes]
rs988098	0.80[EUR][1000 genomes]
rs9968863	0.83[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	esv16596	chr6:119251007-119272087	Active TSS Weak transcription Strong transcription Flanking Active TSS Enhancers ZNF genes & repeats Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases
2	nsv437523	chr6:119251971-119260280	Active TSS Enhancers Weak transcription Strong transcription Flanking Active TSS Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh ZNF genes & repeats Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region	13 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs6910782	TSPYL1	cis	parietal	SCAN
rs6910782	MCM9	cis	lymphoblastoid	seeQTL
rs6910782	FAM184A	cis	parietal	SCAN
rs6910782	MCM9	cis	cerebellum	SCAN
rs6910782	MCM9	cis	parietal	SCAN

Chromatin state (count:124 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:119219200-119254400	Strong transcription	Placenta	Placenta
2	chr6:119221200-119255800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr6:119222000-119254400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
4	chr6:119222000-119255200	Weak transcription	Fetal Heart	heart
5	chr6:119224800-119254800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
6	chr6:119226000-119255200	Weak transcription	ES-I3 Cell Line	embryonic stem cell
7	chr6:119227000-119254800	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
8	chr6:119227800-119254800	Weak transcription	iPS-15b Cell Line	embryonic stem cell
9	chr6:119235600-119255200	Weak transcription	Fetal Brain Male	brain
10	chr6:119235600-119255400	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
11	chr6:119236600-119255200	Weak transcription	Right Ventricle	heart
12	chr6:119237000-119255200	Weak transcription	Brain Germinal Matrix	brain
13	chr6:119237000-119255200	Weak transcription	Gastric	stomach
14	chr6:119237200-119255200	Weak transcription	Brain Angular Gyrus	brain
15	chr6:119239800-119255200	Weak transcription	NHLF	lung
16	chr6:119240000-119255200	Weak transcription	Fetal Brain Female	brain
17	chr6:119241000-119254800	Weak transcription	Pancreatic Islets	Pancreatic Islet
18	chr6:119242600-119255200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
19	chr6:119242600-119255200	Weak transcription	Colonic Mucosa	Colon
20	chr6:119242800-119255800	Weak transcription	Spleen	Spleen
21	chr6:119243000-119255200	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
22	chr6:119243400-119255200	Weak transcription	H9 Cell Line	embryonic stem cell
23	chr6:119243800-119254800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
24	chr6:119243800-119254800	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
25	chr6:119244000-119255200	Weak transcription	Brain Cingulate Gyrus	brain
26	chr6:119244000-119255400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr6:119244600-119255200	Weak transcription	Aorta	Aorta
28	chr6:119244800-119254800	Weak transcription	Rectal Smooth Muscle	rectum
29	chr6:119245200-119254800	Weak transcription	Brain Substantia Nigra	brain
30	chr6:119245200-119255000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
31	chr6:119245200-119255000	Weak transcription	Colon Smooth Muscle	Colon
32	chr6:119245200-119255000	Weak transcription	Fetal Kidney	kidney
33	chr6:119245200-119255000	Weak transcription	HUVEC	blood vessel
34	chr6:119245200-119255400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
35	chr6:119245400-119255000	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
36	chr6:119245400-119255200	Weak transcription	Osteobl	bone
37	chr6:119245400-119255600	Weak transcription	Pancreas	Pancrea
38	chr6:119245600-119255600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr6:119245800-119255200	Weak transcription	Brain Anterior Caudate	brain
40	chr6:119246600-119255400	Weak transcription	Ovary	ovary
41	chr6:119246800-119254800	Weak transcription	Muscle Satellite Cultured Cells	--
42	chr6:119246800-119255200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
43	chr6:119246800-119255200	Weak transcription	Fetal Lung	lung
44	chr6:119247000-119255200	Weak transcription	NHEK	skin
45	chr6:119247600-119255000	Weak transcription	Cortex derived primary cultured neurospheres	brain
46	chr6:119249600-119255200	Weak transcription	Brain Hippocampus Middle	brain
47	chr6:119249600-119255400	Weak transcription	Esophagus	oesophagus
48	chr6:119249800-119254800	Weak transcription	Stomach Smooth Muscle	stomach
49	chr6:119249800-119255200	Weak transcription	Psoas Muscle	Psoas
50	chr6:119249800-119255400	Weak transcription	Left Ventricle	heart

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