Variant report

Variant	rs13055244
Chromosome Location	chr22:28328211-28328212
allele	G/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr22:28313170..28318455-chr22:28322115..28328804,10	MCF-7	breast:
2	chr22:28327466..28330447-chr22:28330526..28332716,2	MCF-7	breast:

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-HSCB-4	chr22:28328114-28329719	NONHSAT084630

Variant related genes	Relation type
ENSG00000180957	Chromatin interaction
ENSG00000235954	Chromatin interaction
ENSG00000264073	Chromatin interaction

Extended variants
information (count: 36 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:35)

rs_ID	r²[population]
rs13054964	0.81[EUR][1000 genomes]
rs13055218	0.81[EUR][1000 genomes]
rs13055409	0.83[EUR][1000 genomes]
rs13055548	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs13057007	0.85[EUR][1000 genomes]
rs13057353	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs13057948	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs13058493	0.81[EUR][1000 genomes]
rs28360522	0.85[EUR][1000 genomes]
rs34013124	0.83[EUR][1000 genomes]
rs34031771	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs34189918	0.85[EUR][1000 genomes]
rs34364992	0.85[EUR][1000 genomes]
rs34625726	0.85[EUR][1000 genomes]
rs34946887	0.93[EUR][1000 genomes]
rs35098100	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[EUR][1000 genomes]
rs35182834	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs35568348	1.00[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs35568804	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35649017	0.81[EUR][1000 genomes]
rs35750499	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs35866626	1.00[AFR][1000 genomes]
rs35906248	1.00[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs36060887	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs41281591	1.00[AFR][1000 genomes];0.97[EUR][1000 genomes]
rs71325264	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.90[EUR][1000 genomes]
rs71325266	1.00[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs71325268	1.00[AFR][1000 genomes]
rs71325269	1.00[AFR][1000 genomes];0.87[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs71325272	1.00[AFR][1000 genomes]
rs71325273	0.81[EUR][1000 genomes]
rs736531	1.00[AMR][1000 genomes]
rs767919	0.85[EUR][1000 genomes]
rs8141981	0.83[EUR][1000 genomes]
rs910009	1.00[AFR][1000 genomes];1.00[AMR][1000 genomes];0.83[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	nsv1062877	chr22:28163507-28866350	Weak transcription Enhancers Genic enhancers Strong transcription Transcr. at gene 5' and 3' Bivalent Enhancer Flanking Bivalent TSS/Enh Flanking Active TSS Active TSS Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:65 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr22:28316200-28328400	Weak transcription	Aorta	Aorta
2	chr22:28316200-28337400	Weak transcription	Ovary	ovary
3	chr22:28316400-28329000	Weak transcription	Pancreas	Pancrea
4	chr22:28316400-28329000	Weak transcription	Rectal Mucosa Donor 29	rectum
5	chr22:28316400-28335000	Weak transcription	Colonic Mucosa	Colon
6	chr22:28316400-28336800	Weak transcription	Fetal Muscle Leg	muscle
7	chr22:28316400-28342600	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
8	chr22:28316400-28358600	Weak transcription	Placenta	Placenta
9	chr22:28316400-28370200	Weak transcription	Primary T cells fromperipheralblood	blood
10	chr22:28316400-28376800	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
11	chr22:28316400-28378000	Weak transcription	Esophagus	oesophagus
12	chr22:28316600-28328600	Weak transcription	Stomach Mucosa	stomach
13	chr22:28316600-28348400	Weak transcription	Brain Substantia Nigra	brain
14	chr22:28316800-28329000	Weak transcription	Rectal Mucosa Donor 31	rectum
15	chr22:28316800-28333800	Weak transcription	Brain Hippocampus Middle	brain
16	chr22:28316800-28336600	Weak transcription	Fetal Intestine Large	intestine
17	chr22:28316800-28340400	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
18	chr22:28317000-28338800	Weak transcription	Fetal Intestine Small	intestine
19	chr22:28317000-28340800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
20	chr22:28317000-28348200	Weak transcription	Brain Inferior Temporal Lobe	brain
21	chr22:28317200-28336600	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
22	chr22:28317600-28329000	Weak transcription	Duodenum Smooth Muscle	Duodenum
23	chr22:28317600-28340800	Weak transcription	Thymus	Thymus
24	chr22:28317800-28342600	Weak transcription	Small Intestine	intestine
25	chr22:28317800-28345200	Weak transcription	HepG2	liver
26	chr22:28318600-28332400	Weak transcription	K562	blood
27	chr22:28318800-28382000	Weak transcription	Primary T helper cells fromperipheralblood	blood
28	chr22:28319400-28334000	Weak transcription	Fetal Stomach	stomach
29	chr22:28319600-28340800	Weak transcription	Fetal Thymus	thymus
30	chr22:28319600-28358000	Weak transcription	Brain Germinal Matrix	brain
31	chr22:28319600-28383000	Weak transcription	Primary hematopoietic stem cells short term culture	blood
32	chr22:28320800-28347800	Weak transcription	HUVEC	blood vessel
33	chr22:28321000-28354800	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
34	chr22:28321200-28329000	Weak transcription	Duodenum Mucosa	Duodenum
35	chr22:28321200-28358400	Weak transcription	Fetal Muscle Trunk	muscle
36	chr22:28321400-28340400	Weak transcription	Cortex derived primary cultured neurospheres	brain
37	chr22:28321400-28379000	Weak transcription	Primary B cells from cord blood	blood
38	chr22:28321600-28332200	Weak transcription	Fetal Brain Female	brain
39	chr22:28321600-28345000	Weak transcription	Fetal Lung	lung
40	chr22:28321800-28342800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
41	chr22:28322000-28365200	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
42	chr22:28322000-28366200	Weak transcription	Primary hematopoietic stem cells	blood
43	chr22:28322200-28339600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
44	chr22:28322400-28329000	Weak transcription	Primary T cells from cord blood	blood
45	chr22:28322600-28329400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
46	chr22:28323000-28331000	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
47	chr22:28323800-28346000	Weak transcription	Dnd41	blood
48	chr22:28326600-28330000	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
49	chr22:28326800-28334600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
50	chr22:28326800-28368600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived

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