Variant report

Variant	rs17074420
Chromosome Location	chr13:30780602-30780603
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr13:30780598..30783171-chr13:31037379..31039665,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HMGB1-4	chr13:30780072-30781018	NONHSAT032769

Variant related genes	Relation type
ENSG00000189403	Chromatin interaction

Extended variants
information (count: 4 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:3)

rs_ID	r²[population]
rs1023104	1.00[CEU][hapmap];0.83[EUR][1000 genomes]
rs11620056	0.90[EUR][1000 genomes]
rs17074418	1.00[CEU][hapmap];0.80[EUR][1000 genomes]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv832572	chr13:30650005-30835256	Weak transcription Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent Enhancer Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	13 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:95 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:30754000-30798800	Weak transcription	Brain Anterior Caudate	brain
2	chr13:30760800-30781800	Weak transcription	Stomach Smooth Muscle	stomach
3	chr13:30761600-30792800	Weak transcription	Fetal Brain Male	brain
4	chr13:30763400-30781600	Weak transcription	Duodenum Smooth Muscle	Duodenum
5	chr13:30763600-30786400	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
6	chr13:30764600-30790200	Weak transcription	Colon Smooth Muscle	Colon
7	chr13:30765600-30807000	Weak transcription	Gastric	stomach
8	chr13:30766000-30781800	Weak transcription	NH-A	brain
9	chr13:30766000-30783400	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr13:30766200-30790400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
11	chr13:30766400-30804400	Weak transcription	Duodenum Mucosa	Duodenum
12	chr13:30768000-30795000	Weak transcription	Brain Germinal Matrix	brain
13	chr13:30768200-30781600	Weak transcription	Fetal Muscle Leg	muscle
14	chr13:30768600-30792600	Weak transcription	Spleen	Spleen
15	chr13:30768600-30798800	Weak transcription	HMEC	breast
16	chr13:30769000-30796400	Weak transcription	A549	lung
17	chr13:30769800-30781400	Weak transcription	HUVEC	blood vessel
18	chr13:30769800-30790400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
19	chr13:30770000-30790400	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
20	chr13:30770000-30790400	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
21	chr13:30770000-30799200	Weak transcription	HSMMtube	muscle
22	chr13:30770400-30781400	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr13:30770400-30784400	Weak transcription	Psoas Muscle	Psoas
24	chr13:30770400-30786400	Weak transcription	Fetal Brain Female	brain
25	chr13:30770400-30790400	Weak transcription	Fetal Muscle Trunk	muscle
26	chr13:30770600-30781400	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
27	chr13:30770600-30782000	Weak transcription	Muscle Satellite Cultured Cells	--
28	chr13:30770600-30786000	Weak transcription	Fetal Stomach	stomach
29	chr13:30770600-30786400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
30	chr13:30770600-30790400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
31	chr13:30770600-30796200	Weak transcription	HUES6 Cell Line	embryonic stem cell
32	chr13:30770600-30803200	Weak transcription	HUES48 Cell Line	embryonic stem cell
33	chr13:30770800-30781400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr13:30771000-30781000	Weak transcription	HUES64 Cell Line	embryonic stem cell
35	chr13:30771000-30782000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
36	chr13:30771200-30790200	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr13:30771200-30790400	Weak transcription	Right Ventricle	heart
38	chr13:30771800-30794800	Weak transcription	Primary hematopoietic stem cells	blood
39	chr13:30772400-30796400	Weak transcription	NHEK	skin
40	chr13:30773000-30782600	Weak transcription	Primary B cells from peripheral blood	blood
41	chr13:30773400-30790400	Weak transcription	H9 Cell Line	embryonic stem cell
42	chr13:30774000-30796400	Weak transcription	Liver	Liver
43	chr13:30774200-30790400	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
44	chr13:30774200-30796000	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
45	chr13:30774400-30787200	Strong transcription	Dnd41	blood
46	chr13:30774400-30812600	Weak transcription	Rectal Mucosa Donor 31	rectum
47	chr13:30774600-30790400	Weak transcription	Aorta	Aorta
48	chr13:30774600-30790400	Weak transcription	Skeletal Muscle Female	skeletal muscle
49	chr13:30774600-30795800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
50	chr13:30774600-30802800	Weak transcription	Lung	lung

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