Variant report

Variant	rs73742556
Chromosome Location	chr6:28350626-28350627
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:13)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:13 , 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	chr6:28042414..28044265-chr6:28350613..28353294,2	K562	blood:
7	chr6:28302507..28305351-chr6:28350132..28351669,2	K562	blood:
8	chr6:28189695..28192033-chr6:28349571..28352462,4	K562	blood:
9	chr6:28098221..28099883-chr6:28348918..28351398,2	MCF-7	breast:
10	chr6:28187278..28189645-chr6:28349848..28351599,2	K562	blood:
11	chr6:28189695..28193201-chr6:28349960..28353387,4	K562	blood:
12	chr6:28346545..28348363-chr6:28349584..28351262,2	MCF-7	breast:
13	chr6:28349465..28351465-chr6:28394048..28396108,2	MCF-7	breast:

No data

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

Extended variants
information (count: 55 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:51)

rs_ID	r²[population]
rs55824022	1.00[AMR][1000 genomes]
rs55824759	1.00[AMR][1000 genomes]
rs56149387	1.00[AMR][1000 genomes]
rs56202543	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs56210889	1.00[AMR][1000 genomes]
rs57264899	1.00[AMR][1000 genomes]
rs57322407	1.00[AMR][1000 genomes]
rs57378414	1.00[AMR][1000 genomes]
rs57944534	1.00[AMR][1000 genomes]
rs58096372	1.00[AMR][1000 genomes]
rs58676312	1.00[AMR][1000 genomes]
rs58973509	1.00[AMR][1000 genomes]
rs59373145	1.00[AMR][1000 genomes]
rs60534266	1.00[AMR][1000 genomes]
rs60572869	1.00[AMR][1000 genomes]
rs60706469	1.00[AMR][1000 genomes]
rs60971314	1.00[AMR][1000 genomes]
rs61191532	1.00[AMR][1000 genomes]
rs61511418	1.00[AMR][1000 genomes]
rs61624419	1.00[AMR][1000 genomes]
rs73740563	1.00[AMR][1000 genomes]
rs73740567	1.00[AMR][1000 genomes]
rs73740571	1.00[AMR][1000 genomes]
rs73740592	1.00[AMR][1000 genomes]
rs73740616	1.00[AMR][1000 genomes]
rs73740627	1.00[AMR][1000 genomes]
rs73740630	1.00[AMR][1000 genomes]
rs73740631	1.00[AMR][1000 genomes]
rs73740633	1.00[AMR][1000 genomes]
rs73740635	1.00[AMR][1000 genomes]
rs73740637	1.00[AMR][1000 genomes]
rs73740939	1.00[AMR][1000 genomes]
rs73740940	1.00[AMR][1000 genomes]
rs73740941	1.00[AMR][1000 genomes]
rs73740942	1.00[AMR][1000 genomes]
rs73740943	1.00[AMR][1000 genomes]
rs73740944	1.00[AMR][1000 genomes]
rs73740945	1.00[AMR][1000 genomes]
rs73740946	1.00[AMR][1000 genomes]
rs73740947	1.00[AMR][1000 genomes]
rs73740948	1.00[AMR][1000 genomes]
rs73740949	1.00[AMR][1000 genomes]
rs73740950	1.00[AMR][1000 genomes]
rs73740951	1.00[AMR][1000 genomes]
rs73740953	1.00[AMR][1000 genomes]
rs73740954	1.00[AMR][1000 genomes]
rs73742519	1.00[AMR][1000 genomes]
rs73742523	1.00[AMR][1000 genomes]
rs73742540	1.00[AMR][1000 genomes]
rs73742557	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes]
rs73743509	1.00[AMR][1000 genomes]

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	esv3500705	chr6:28350489-28350884	Weak transcription Flanking Active TSS Strong transcription Active TSS Enhancers Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
2	esv3500706	chr6:28350489-28350884	Enhancers Flanking Active TSS Active TSS Weak transcription Transcr. at gene 5' and 3' Strong transcription Genic enhancers	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
3	esv2182271	chr6:28350500-28350965	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases
4	esv3424963	chr6:28350538-28350885	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription Transcr. at gene 5' and 3' Genic enhancers	Chromatin interactive region	6 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:127 , 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	chr6:28333800-28350800	Weak transcription	Lung	lung
7	chr6:28333800-28351000	Weak transcription	Placenta Amnion	Placenta Amnion
8	chr6:28334000-28350800	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
9	chr6:28334200-28351000	Weak transcription	Gastric	stomach
10	chr6:28334200-28351200	Weak transcription	Spleen	Spleen
11	chr6:28334400-28351000	Weak transcription	Esophagus	oesophagus
12	chr6:28334600-28351000	Weak transcription	Sigmoid Colon	Sigmoid Colon
13	chr6:28344800-28350800	Weak transcription	Small Intestine	intestine
14	chr6:28345000-28361600	Strong transcription	Dnd41	blood
15	chr6:28347200-28350800	Strong transcription	Ganglion Eminence derived primary cultured neurospheres	brain
16	chr6:28348400-28350800	Strong transcription	Primary hematopoietic stem cells short term culture	blood
17	chr6:28348400-28351000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
18	chr6:28348400-28357800	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr6:28348600-28350800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
20	chr6:28348600-28350800	Weak transcription	Fetal Brain Male	brain
21	chr6:28348600-28350800	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr6:28348600-28350800	Weak transcription	NHDF-Ad	bronchial
23	chr6:28348600-28351000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
24	chr6:28348600-28351000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
25	chr6:28348800-28350800	Weak transcription	Brain Angular Gyrus	brain
26	chr6:28348800-28350800	Weak transcription	Brain Substantia Nigra	brain
27	chr6:28348800-28350800	Weak transcription	Thymus	Thymus
28	chr6:28348800-28351000	Weak transcription	Placenta	Placenta
29	chr6:28349400-28350800	Strong transcription	Foreskin Melanocyte Primary Cells skin03	Skin
30	chr6:28349800-28350800	Enhancers	Colon Smooth Muscle	Colon
31	chr6:28350000-28350800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr6:28350000-28350800	Enhancers	Primary B cells from cord blood	blood
33	chr6:28350000-28350800	Weak transcription	Primary hematopoietic stem cells	blood
34	chr6:28350000-28350800	Weak transcription	Aorta	Aorta
35	chr6:28350000-28350800	Weak transcription	HSMM	muscle
36	chr6:28350000-28351000	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
37	chr6:28350000-28351000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
38	chr6:28350200-28350800	Weak transcription	H9 Cell Line	embryonic stem cell
39	chr6:28350200-28350800	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
40	chr6:28350200-28350800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
41	chr6:28350200-28350800	Enhancers	Primary B cells from peripheral blood	blood
42	chr6:28350200-28350800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
43	chr6:28350200-28350800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
44	chr6:28350200-28350800	Weak transcription	Brain Cingulate Gyrus	brain
45	chr6:28350200-28350800	Weak transcription	Brain Hippocampus Middle	brain
46	chr6:28350200-28350800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
47	chr6:28350200-28350800	Weak transcription	Fetal Brain Female	brain
48	chr6:28350200-28350800	Weak transcription	Fetal Lung	lung
49	chr6:28350200-28350800	Weak transcription	Fetal Muscle Trunk	muscle
50	chr6:28350200-28350800	Weak transcription	Fetal Thymus	thymus

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