Variant report

Variant	rs12208474
Chromosome Location	chr6:109655232-109655233
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:3)
CpG islands
(count:0)
Chromatin interactive
region (count:4)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

(count:3 , 50 per page) page: 1

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	KAP1	chr6:109655058-109655411	K562	blood:	n/a	n/a
2	CBX3	chr6:109654927-109655438	K562	blood:	n/a	n/a
3	ZNF143	chr6:109655185-109655344	K562	blood:	n/a	n/a

No data

(count:4 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:109654193..109659063-chr6:109701671..109705275,8	MCF-7	breast:
2	chr6:109654230..109656152-chr6:109690482..109693249,2	MCF-7	breast:
3	chr6:109652681..109655937-chr6:109701274..109703936,3	MCF-7	breast:
4	chr6:109654487..109657351-chr6:109665508..109668370,2	K562	blood:

No data

Variant related genes	Relation type
CCDC162P	TF binding region
ENSG00000260273	Chromatin interaction
ENSG00000135535	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:15)

rs_ID	r²[population]
rs10457191	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.97[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1048197	1.00[CEU][hapmap];0.82[CHB][hapmap];0.92[JPT][hapmap];0.81[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12190158	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs12192774	0.81[EUR][1000 genomes]
rs12200776	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12203098	0.83[AMR][1000 genomes]
rs12204742	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs12208204	0.83[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12208785	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs12211964	1.00[CEU][hapmap];0.91[CHB][hapmap];1.00[JPT][hapmap];0.85[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs3757239	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs56211936	0.87[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs752727	1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[ASN][1000 genomes]
rs7751929	0.90[AMR][1000 genomes];0.89[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs9791268	1.00[CEU][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv5435	chr6:109633035-109669127	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Strong transcription Active TSS Genic enhancers	TF binding region Chromatin interactive region lncRNA	9 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	chr6:109644600-109675200	Weak transcription	Primary T cells from cord blood	blood
2	chr6:109644800-109657400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
3	chr6:109645400-109662400	Weak transcription	Aorta	Aorta
4	chr6:109653400-109658800	Enhancers	Rectal Mucosa Donor 31	rectum
5	chr6:109653800-109656400	Weak transcription	Colonic Mucosa	Colon
6	chr6:109654000-109657400	Weak transcription	Pancreas	Pancrea
7	chr6:109654000-109657600	Weak transcription	Adipose Nuclei	Adipose
8	chr6:109654000-109669400	Weak transcription	Small Intestine	intestine
9	chr6:109654200-109657000	Weak transcription	Rectal Mucosa Donor 29	rectum
10	chr6:109654200-109657400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
11	chr6:109654200-109671000	Weak transcription	Spleen	Spleen
12	chr6:109654200-109675000	Weak transcription	Primary B cells from peripheral blood	blood
13	chr6:109654200-109676200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
14	chr6:109654400-109656600	Weak transcription	Gastric	stomach
15	chr6:109654400-109657400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
16	chr6:109654400-109657400	Weak transcription	Placenta	Placenta
17	chr6:109654400-109657400	Weak transcription	Right Ventricle	heart
18	chr6:109654400-109657400	Weak transcription	Hela-S3	cervix
19	chr6:109654400-109657600	Weak transcription	Primary neutrophils fromperipheralblood	blood
20	chr6:109654400-109657600	Weak transcription	Duodenum Mucosa	Duodenum
21	chr6:109654400-109657800	Weak transcription	K562	blood
22	chr6:109654400-109660600	Weak transcription	Fetal Muscle Leg	muscle
23	chr6:109654400-109668800	Weak transcription	Monocytes-CD14+_RO01746	blood
24	chr6:109654600-109655800	Weak transcription	Stomach Mucosa	stomach
25	chr6:109654600-109657400	Weak transcription	HepG2	liver
26	chr6:109655000-109655800	Weak transcription	Sigmoid Colon	Sigmoid Colon

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