Variant report

Variant	rs13219561
Chromosome Location	chr6:109615038-109615039
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Transcrition factor	Chromosome Location	Cell Line	Cell type	Cell Stage	Matched TF binding sites
1	SP1	chr6:109615010-109615734	HCT-116	colon:	n/a	chr6:109615307-109615321
2	SP1	chr6:109614956-109615753	HCT-116	colon:	n/a	chr6:109615307-109615321

No.	Distal block	Cell Line	Cell type
1	chr6:109414698..109417421-chr6:109614595..109617032,3	MCF-7	breast:
2	chr6:109613644..109615634-chr6:109701677..109704002,2	K562	blood:
3	chr6:109613797..109616312-chr6:109702118..109704634,2	MCF-7	breast:

Variant related genes	Relation type
PTCHD3P3	TF binding region
CCDC162P	TF binding region
ENSG00000238474	TF binding region
ENSG00000183137	Chromatin interaction
ENSG00000260273	Chromatin interaction
ENSG00000135535	Chromatin interaction
ENSG00000080546	Chromatin interaction

Extended variants
information (count: 41 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:41)

rs_ID	r²[population]
rs1008084	0.85[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs11153165	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11153166	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11153167	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11153168	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs11751953	0.94[ASN][1000 genomes]
rs11757567	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11961369	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs11966072	0.94[ASN][1000 genomes]
rs12664455	0.90[ASN][1000 genomes]
rs13191948	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs13196219	0.94[ASN][1000 genomes]
rs13200047	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs13203155	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs13219432	0.83[AFR][1000 genomes];0.97[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1341271	1.00[AFR][1000 genomes];0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs1546723	0.86[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs4548045	0.85[ASN][1000 genomes]
rs5005289	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs55677234	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs59272337	0.92[ASN][1000 genomes]
rs6568569	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6568570	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs6568571	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7748918	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7773490	0.87[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9374076	0.94[ASN][1000 genomes]
rs9374080	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9374081	0.94[ASN][1000 genomes]
rs9386779	0.85[ASN][1000 genomes]
rs9386795	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9386796	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9400265	0.94[ASN][1000 genomes]
rs9400272	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9400273	0.87[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9480924	0.89[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487023	0.81[AFR][1000 genomes];0.90[AMR][1000 genomes];0.98[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9487048	0.86[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487049	0.92[AFR][1000 genomes];0.94[ASN][1000 genomes]
rs9487051	0.85[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs9487052	0.99[AFR][1000 genomes];0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]

No data

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

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109591600-109615200	Weak transcription	Placenta	Placenta
2	chr6:109611200-109615200	Weak transcription	Esophagus	oesophagus
3	chr6:109611200-109618200	Weak transcription	Gastric	stomach
4	chr6:109612600-109615400	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
5	chr6:109612600-109615600	Enhancers	Skeletal Muscle Female	skeletal muscle
6	chr6:109612800-109615200	Enhancers	Rectal Mucosa Donor 31	rectum
7	chr6:109613000-109615600	Enhancers	Skeletal Muscle Male	skeletal muscle
8	chr6:109613000-109619000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
9	chr6:109613200-109615600	Enhancers	Left Ventricle	heart
10	chr6:109613200-109619000	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
11	chr6:109613400-109620200	Weak transcription	Right Atrium	heart
12	chr6:109613600-109615200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
13	chr6:109613600-109615800	Enhancers	Rectal Mucosa Donor 29	rectum
14	chr6:109613600-109617800	Weak transcription	Fetal Muscle Leg	muscle
15	chr6:109613600-109620600	Enhancers	Primary hematopoietic stem cells short term culture	blood
16	chr6:109613800-109615200	Weak transcription	iPS-15b Cell Line	embryonic stem cell
17	chr6:109613800-109617400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
18	chr6:109613800-109618200	Weak transcription	Brain Anterior Caudate	brain
19	chr6:109614000-109615200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr6:109614000-109615200	Weak transcription	HUES6 Cell Line	embryonic stem cell
21	chr6:109614000-109615200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
22	chr6:109614000-109615200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
23	chr6:109614000-109615200	Weak transcription	Duodenum Mucosa	Duodenum
24	chr6:109614000-109615200	Weak transcription	Fetal Muscle Trunk	muscle
25	chr6:109614000-109615200	Weak transcription	Pancreas	Pancrea
26	chr6:109614000-109615200	Weak transcription	Psoas Muscle	Psoas
27	chr6:109614000-109615400	Weak transcription	Brain Inferior Temporal Lobe	brain
28	chr6:109614000-109618200	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
29	chr6:109614000-109618400	Weak transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
30	chr6:109614000-109618600	Weak transcription	Brain Angular Gyrus	brain
31	chr6:109614000-109619000	Weak transcription	Brain Substantia Nigra	brain
32	chr6:109614000-109622000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
33	chr6:109614200-109615200	Weak transcription	HUES48 Cell Line	embryonic stem cell
34	chr6:109614200-109615200	Weak transcription	Fetal Intestine Small	intestine
35	chr6:109614200-109615200	Weak transcription	Stomach Mucosa	stomach
36	chr6:109614200-109618400	Weak transcription	Brain Cingulate Gyrus	brain
37	chr6:109614200-109619000	Weak transcription	Brain Hippocampus Middle	brain
38	chr6:109614400-109615600	Enhancers	HMEC	breast
39	chr6:109614400-109621000	Enhancers	Primary hematopoietic stem cells	blood
40	chr6:109614600-109615800	Enhancers	HUES64 Cell Line	embryonic stem cell
41	chr6:109614600-109616000	Enhancers	Fetal Heart	heart
42	chr6:109614600-109619400	Enhancers	HepG2	liver
43	chr6:109614800-109615600	Enhancers	ES-I3 Cell Line	embryonic stem cell
44	chr6:109614800-109615600	Enhancers	Right Ventricle	heart
45	chr6:109614800-109615600	Flanking Active TSS	Hela-S3	cervix
46	chr6:109614800-109624400	Enhancers	K562	blood
47	chr6:109615000-109615600	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
48	chr6:109615000-109615600	Enhancers	NHEK	skin
49	chr6:109615000-109616000	Enhancers	Colon Smooth Muscle	Colon
50	chr6:109615000-109619600	Enhancers	Fetal Intestine Large	intestine

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