Variant report

Variant	rs10411199
Chromosome Location	chr19:39452552-39452553
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr19:39450542..39452655-chr19:39464406..39466018,2	MCF-7	breast:
2	chr19:39451089..39454157-chr19:39527302..39529882,3	MCF-7	breast:
3	chr19:39446984..39449185-chr19:39451380..39452922,2	K562	blood:
4	chr19:39451205..39454467-chr19:39519631..39524743,4	MCF-7	breast:
5	chr19:39451381..39454892-chr19:39459687..39462342,3	K562	blood:
6	chr19:39450778..39452784-chr19:39902790..39905419,2	K562	blood:
7	chr14:53160999..53162843-chr19:39450717..39452706,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000090924	Chromatin interaction
ENSG00000267992	Chromatin interaction
ENSG00000197930	Chromatin interaction
ENSG00000161243	Chromatin interaction

Extended variants
information (count: 8 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:6)

rs_ID	r²[population]
rs10416467	0.87[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs10853722	0.87[AMR][1000 genomes];0.86[EUR][1000 genomes]
rs12052182	0.86[EUR][1000 genomes]
rs12151188	0.88[EUR][1000 genomes]
rs7249668	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs7254599	0.81[AMR][1000 genomes];0.89[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1057899	chr19:39088319-39475493	Flanking Active TSS Flanking Bivalent TSS/Enh Genic enhancers Weak transcription Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Active TSS Strong transcription Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	82 gene(s)	inside rSNPs	diseases
2	esv2762038	chr19:39444417-39455548	Weak transcription ZNF genes & repeats Enhancers Strong transcription Active TSS Genic enhancers Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region	7 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	chr19:39422600-39453000	Weak transcription	HSMMtube	muscle
2	chr19:39435800-39453000	Weak transcription	K562	blood
3	chr19:39438400-39453000	Weak transcription	Muscle Satellite Cultured Cells	--
4	chr19:39439200-39452600	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
5	chr19:39441000-39453000	Weak transcription	Aorta	Aorta
6	chr19:39441000-39459200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
7	chr19:39441200-39452800	Weak transcription	Rectal Smooth Muscle	rectum
8	chr19:39441200-39453000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
9	chr19:39441200-39453000	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
10	chr19:39441200-39453000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
11	chr19:39441200-39453000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
12	chr19:39441200-39453000	Weak transcription	Brain Hippocampus Middle	brain
13	chr19:39441200-39453000	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
14	chr19:39441200-39453000	Weak transcription	Lung	lung
15	chr19:39441200-39453000	Weak transcription	Pancreas	Pancrea
16	chr19:39441200-39453000	Weak transcription	Osteobl	bone
17	chr19:39441200-39455800	Weak transcription	Psoas Muscle	Psoas
18	chr19:39441200-39459400	Weak transcription	Fetal Lung	lung
19	chr19:39441200-39465200	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr19:39441200-39465200	Weak transcription	Placenta Amnion	Placenta Amnion
21	chr19:39441200-39465200	Weak transcription	NHLF	lung
22	chr19:39441200-39465400	Weak transcription	Right Atrium	heart
23	chr19:39441400-39452600	Weak transcription	Adipose Nuclei	Adipose
24	chr19:39441400-39452600	Weak transcription	Colon Smooth Muscle	Colon
25	chr19:39441400-39453000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
26	chr19:39441400-39453000	Weak transcription	Duodenum Smooth Muscle	Duodenum
27	chr19:39441400-39453000	Weak transcription	Fetal Brain Male	brain
28	chr19:39441400-39453000	Weak transcription	Fetal Brain Female	brain
29	chr19:39441400-39453000	Weak transcription	Ovary	ovary
30	chr19:39441400-39453000	Weak transcription	Stomach Smooth Muscle	stomach
31	chr19:39441400-39453200	Weak transcription	Fetal Heart	heart
32	chr19:39441400-39462000	Weak transcription	Small Intestine	intestine
33	chr19:39441400-39465000	Weak transcription	HUVEC	blood vessel
34	chr19:39443400-39453000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
35	chr19:39443600-39452800	Weak transcription	Fetal Kidney	kidney
36	chr19:39443600-39453000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
37	chr19:39443600-39453000	Weak transcription	HSMM	muscle
38	chr19:39445000-39453000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
39	chr19:39445000-39453000	Weak transcription	Liver	Liver
40	chr19:39445800-39453000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
41	chr19:39446200-39453000	Strong transcription	Fetal Intestine Small	intestine
42	chr19:39446800-39455400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
43	chr19:39448000-39453000	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
44	chr19:39448400-39452600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
45	chr19:39448600-39452600	Weak transcription	Fetal Intestine Large	intestine
46	chr19:39448600-39453000	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr19:39449600-39453000	Weak transcription	HUES48 Cell Line	embryonic stem cell
48	chr19:39449800-39452600	Weak transcription	Fetal Muscle Trunk	muscle
49	chr19:39449800-39452600	Weak transcription	Fetal Muscle Leg	muscle
50	chr19:39449800-39453000	Weak transcription	HUES6 Cell Line	embryonic stem cell

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