Variant report

Variant	rs62111445
Chromosome Location	chr19:35704289-35704290
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr19:35703283..35706238-chr19:35738621..35741297,3	MCF-7	breast:
2	chr19:35703379..35705750-chr19:35757891..35759671,2	K562	blood:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-LSR-1	chr19:35704060-35704688	XLOC_013049

Variant related genes	Relation type
ENSG00000105699	Chromatin interaction

Extended variants
information (count: 13 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs10425846	0.88[EUR][1000 genomes]
rs12973118	1.00[ASN][1000 genomes]
rs17541474	0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17613706	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34461963	0.93[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs34979825	0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs36101648	0.88[EUR][1000 genomes];1.00[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv432045	chr19:35556260-36520760	Flanking Active TSS Enhancers Active TSS Weak transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer Strong transcription Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	191 gene(s)	inside rSNPs	diseases
2	nsv1060100	chr19:35658505-36170042	Weak transcription Bivalent Enhancer Enhancers Flanking Active TSS Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Active TSS Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
3	nsv543993	chr19:35658505-36170042	Enhancers Strong transcription Active TSS Weak transcription Bivalent Enhancer Flanking Active TSS Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	107 gene(s)	inside rSNPs	diseases
4	nsv1067541	chr19:35698638-35712439	Flanking Active TSS Weak transcription Enhancers ZNF genes & repeats Bivalent Enhancer	Chromatin interactive region lncRNA	8 gene(s)	inside rSNPs	diseases
5	nsv1066553	chr19:35698638-35749563	Enhancers Flanking Active TSS Strong transcription Weak transcription Active TSS Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	47 gene(s)	inside rSNPs	diseases
6	esv2763203	chr19:35700047-35738400	Flanking Active TSS Enhancers Bivalent/Poised TSS ZNF genes & repeats Weak transcription Bivalent Enhancer Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:59 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr19:35693400-35707000	Enhancers	Primary T killer naive cells fromperipheralblood	blood
2	chr19:35694000-35704400	Enhancers	Primary T cells fromperipheralblood	blood
3	chr19:35694200-35708200	Enhancers	Primary Natural Killer cells fromperipheralblood	blood
4	chr19:35696600-35704600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
5	chr19:35696800-35704600	Weak transcription	Colonic Mucosa	Colon
6	chr19:35697400-35704600	Weak transcription	Small Intestine	intestine
7	chr19:35698000-35708200	Enhancers	Primary B cells from peripheral blood	blood
8	chr19:35698000-35708200	Enhancers	Primary T helper cells fromperipheralblood	blood
9	chr19:35698200-35708000	Enhancers	Primary B cells from cord blood	blood
10	chr19:35699200-35708000	Enhancers	Primary T helper memory cells from peripheral blood 1	blood
11	chr19:35700600-35707200	Enhancers	Primary hematopoietic stem cells	blood
12	chr19:35701200-35709400	Enhancers	Primary monocytes fromperipheralblood	blood
13	chr19:35701400-35705600	Enhancers	Fetal Thymus	thymus
14	chr19:35702000-35704600	Weak transcription	Left Ventricle	heart
15	chr19:35702000-35704600	Weak transcription	K562	blood
16	chr19:35702000-35705000	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
17	chr19:35702200-35706000	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
18	chr19:35702400-35704600	Enhancers	GM12878-XiMat	blood
19	chr19:35702600-35704600	Enhancers	Duodenum Mucosa	Duodenum
20	chr19:35702600-35704600	Enhancers	Rectal Mucosa Donor 29	rectum
21	chr19:35702800-35704600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
22	chr19:35702800-35705600	Enhancers	Sigmoid Colon	Sigmoid Colon
23	chr19:35703000-35704600	Weak transcription	Fetal Muscle Trunk	muscle
24	chr19:35703200-35704600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Male	--
25	chr19:35703200-35704600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
26	chr19:35703200-35704600	Weak transcription	Brain Anterior Caudate	brain
27	chr19:35703200-35707000	Enhancers	Primary T regulatory cells fromperipheralblood	blood
28	chr19:35703400-35704400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
29	chr19:35703400-35704600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
30	chr19:35703400-35704600	Enhancers	Primary hematopoietic stem cells short term culture	blood
31	chr19:35703400-35704600	Enhancers	Primary T helper cells PMA-I stimulated	--
32	chr19:35703400-35704600	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
33	chr19:35703400-35704600	Enhancers	Primary hematopoietic stem cells G-CSF-mobilized Female	--
34	chr19:35703400-35704600	Enhancers	Adipose Nuclei	Adipose
35	chr19:35703400-35704600	Weak transcription	Brain Hippocampus Middle	brain
36	chr19:35703400-35704600	Weak transcription	Duodenum Smooth Muscle	Duodenum
37	chr19:35703400-35704600	Weak transcription	Esophagus	oesophagus
38	chr19:35703400-35704600	Weak transcription	Lung	lung
39	chr19:35703400-35704600	Weak transcription	Right Atrium	heart
40	chr19:35703400-35704600	Weak transcription	Thymus	Thymus
41	chr19:35703400-35704600	Weak transcription	Spleen	Spleen
42	chr19:35703400-35705800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr19:35703600-35704600	Enhancers	Primary T helper memory cells from peripheral blood 2	blood
44	chr19:35703600-35704600	Enhancers	Primary T killer memory cells from peripheral blood	blood
45	chr19:35703600-35704600	Weak transcription	Fetal Muscle Leg	muscle
46	chr19:35703600-35704600	Weak transcription	Rectal Smooth Muscle	rectum
47	chr19:35703600-35704600	Weak transcription	Skeletal Muscle Female	skeletal muscle
48	chr19:35703600-35704800	Weak transcription	Brain Inferior Temporal Lobe	brain
49	chr19:35703600-35704800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
50	chr19:35703600-35706000	Enhancers	Primary T helper naive cells fromperipheralblood	blood

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