Variant report

Variant	rs2232439
Chromosome Location	chr6:28350240-28350241
allele	C/G
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:12)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:12 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr6:28302793..28305456-chr6:28347856..28351806,3	MCF-7	breast:
2	chr6:28302573..28306599-chr6:28349951..28354470,6	K562	blood:
3	chr6:28316530..28318158-chr6:28350135..28352700,2	K562	blood:
4	chr6:28336816..28339223-chr6:28349568..28351639,2	MCF-7	breast:
5	chr6:27858275..27861219-chr6:28349730..28352798,3	MCF-7	breast:
6	chr6:28302507..28305351-chr6:28350132..28351669,2	K562	blood:
7	chr6:28189695..28192033-chr6:28349571..28352462,4	K562	blood:
8	chr6:28098221..28099883-chr6:28348918..28351398,2	MCF-7	breast:
9	chr6:28187278..28189645-chr6:28349848..28351599,2	K562	blood:
10	chr6:28189695..28193201-chr6:28349960..28353387,4	K562	blood:
11	chr6:28346545..28348363-chr6:28349584..28351262,2	MCF-7	breast:
12	chr6:28349465..28351465-chr6:28394048..28396108,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000235109	Chromatin interaction
ENSG00000189298	Chromatin interaction
ENSG00000233224	Chromatin interaction
ENSG00000197153	Chromatin interaction
ENSG00000196331	Chromatin interaction
ENSG00000137185	Chromatin interaction

Extended variants
information (count: 30 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:30)

rs_ID	r²[population]
rs11965542	0.82[EUR][1000 genomes]
rs11966042	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs11966237	0.82[EUR][1000 genomes]
rs11969150	0.82[EUR][1000 genomes]
rs213235	0.82[EUR][1000 genomes]
rs2531801	0.82[EUR][1000 genomes]
rs2531826	0.82[EUR][1000 genomes]
rs2531828	0.82[EUR][1000 genomes]
rs2859359	0.82[EUR][1000 genomes]
rs2859362	0.82[EUR][1000 genomes]
rs2859367	0.90[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs59457415	0.82[EUR][1000 genomes]
rs62638680	0.82[EUR][1000 genomes]
rs6916243	0.82[EUR][1000 genomes]
rs6932394	0.82[EUR][1000 genomes]
rs719370	0.82[EUR][1000 genomes]
rs73385806	0.82[EUR][1000 genomes]
rs73385807	0.82[EUR][1000 genomes]
rs73385810	0.82[EUR][1000 genomes]
rs73385818	0.82[EUR][1000 genomes]
rs73385870	0.82[EUR][1000 genomes]
rs73387810	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73399084	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73400580	0.82[EUR][1000 genomes]
rs73400590	0.82[EUR][1000 genomes]
rs73401012	1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73401666	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs73402513	0.82[EUR][1000 genomes]
rs7739389	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs7759845	0.81[AFR][1000 genomes];1.00[AMR][1000 genomes];0.82[EUR][1000 genomes]

No data

Chromatin state (count:125 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:28318400-28350800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr6:28324400-28357200	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
3	chr6:28324400-28357600	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
4	chr6:28324600-28358600	Weak transcription	Primary T killer memory cells from peripheral blood	blood
5	chr6:28325400-28350800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr6:28332000-28350600	Weak transcription	Psoas Muscle	Psoas
7	chr6:28333800-28350800	Weak transcription	Lung	lung
8	chr6:28333800-28351000	Weak transcription	Placenta Amnion	Placenta Amnion
9	chr6:28334000-28350600	Weak transcription	Colonic Mucosa	Colon
10	chr6:28334000-28350800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
11	chr6:28334200-28351000	Weak transcription	Gastric	stomach
12	chr6:28334200-28351200	Weak transcription	Spleen	Spleen
13	chr6:28334400-28350600	Weak transcription	Rectal Mucosa Donor 31	rectum
14	chr6:28334400-28351000	Weak transcription	Esophagus	oesophagus
15	chr6:28334600-28351000	Weak transcription	Sigmoid Colon	Sigmoid Colon
16	chr6:28344800-28350800	Weak transcription	Small Intestine	intestine
17	chr6:28345000-28361600	Strong transcription	Dnd41	blood
18	chr6:28345600-28350600	Strong transcription	Brain Germinal Matrix	brain
19	chr6:28345800-28350400	Strong transcription	Foreskin Fibroblast Primary Cells skin01	Skin
20	chr6:28346000-28350400	Weak transcription	iPS-15b Cell Line	embryonic stem cell
21	chr6:28346200-28350600	Weak transcription	Fetal Stomach	stomach
22	chr6:28346800-28350400	Strong transcription	iPS-18 Cell Line	embryonic stem cell
23	chr6:28346800-28350400	Strong transcription	Fetal Kidney	kidney
24	chr6:28347200-28350400	Strong transcription	HUES48 Cell Line	embryonic stem cell
25	chr6:28347200-28350400	Strong transcription	Cortex derived primary cultured neurospheres	brain
26	chr6:28347200-28350600	Strong transcription	Primary T helper cells fromperipheralblood	blood
27	chr6:28347200-28350800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
28	chr6:28347400-28350400	Weak transcription	Primary monocytes fromperipheralblood	blood
29	chr6:28347400-28350400	Strong transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
30	chr6:28347400-28350600	Strong transcription	Primary T cells fromperipheralblood	blood
31	chr6:28347600-28350400	Strong transcription	H1 Cell Line	embryonic stem cell
32	chr6:28347600-28350400	Strong transcription	HUES6 Cell Line	embryonic stem cell
33	chr6:28347600-28350400	Strong transcription	Brain Inferior Temporal Lobe	brain
34	chr6:28347600-28350600	Strong transcription	Primary T cells from cord blood	blood
35	chr6:28348000-28350400	Strong transcription	Primary T helper naive cells fromperipheralblood	blood
36	chr6:28348000-28350400	Strong transcription	Fetal Adrenal Gland	Adrenal Gland
37	chr6:28348000-28350600	Genic enhancers	HepG2	liver
38	chr6:28348200-28350600	Strong transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr6:28348400-28350800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
40	chr6:28348400-28351000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
41	chr6:28348400-28357800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
42	chr6:28348600-28350600	Weak transcription	Adipose Nuclei	Adipose
43	chr6:28348600-28350600	Weak transcription	Monocytes-CD14+_RO01746	blood
44	chr6:28348600-28350800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
45	chr6:28348600-28350800	Weak transcription	Fetal Brain Male	brain
46	chr6:28348600-28350800	Weak transcription	Skeletal Muscle Female	skeletal muscle
47	chr6:28348600-28350800	Weak transcription	NHDF-Ad	bronchial
48	chr6:28348600-28351000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
49	chr6:28348600-28351000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
50	chr6:28348800-28350400	Weak transcription	Duodenum Smooth Muscle	Duodenum

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