Variant report

Variant	rs11590228
Chromosome Location	chr1:211441684-211441685
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr1:211429837..211436760-chr1:211437638..211443752,13	K562	blood:
2	chr1:211440590..211444196-chr1:211446401..211448138,3	K562	blood:
3	chr1:211440836..211443835-chr1:211454975..211456528,2	K562	blood:
4	chr1:211432823..211435756-chr1:211438488..211442350,5	MCF-7	breast:
5	chr1:211431026..211434345-chr1:211441631..211445363,6	MCF-7	breast:
6	chr1:211440625..211442736-chr1:211462830..211465016,2	K562	blood:

Variant related genes	Relation type
ENSG00000117625	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:23)

rs_ID	r²[population]
rs11577985	0.95[AFR][1000 genomes];0.95[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11581409	0.88[EUR][1000 genomes]
rs11581989	0.93[AFR][1000 genomes];0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs17017361	0.86[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs17017394	0.83[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs17017399	0.82[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs55758006	0.86[ASN][1000 genomes]
rs55941941	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs56046522	0.86[ASN][1000 genomes]
rs56380051	0.82[ASN][1000 genomes]
rs56381832	0.86[ASN][1000 genomes]
rs57331968	0.85[EUR][1000 genomes]
rs61850980	0.91[ASN][1000 genomes]
rs61850982	0.85[EUR][1000 genomes]
rs61850984	0.90[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61850985	0.90[AMR][1000 genomes];0.94[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61850986	0.92[AMR][1000 genomes];0.97[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs61851029	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61851030	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs61851033	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs7514863	0.87[EUR][1000 genomes]
rs7522532	0.86[ASN][1000 genomes]
rs7523875	0.86[ASN][1000 genomes]

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11590228	LINC00467	cis	Muscle Skeletal	GTEx

Chromatin state (count:126 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr1:211434400-211443200	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
2	chr1:211434400-211444800	Weak transcription	Lung	lung
3	chr1:211434400-211453200	Weak transcription	Small Intestine	intestine
4	chr1:211434400-211453400	Weak transcription	Spleen	Spleen
5	chr1:211434400-211454800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
6	chr1:211434400-211487000	Weak transcription	Gastric	stomach
7	chr1:211434600-211443200	Weak transcription	Ovary	ovary
8	chr1:211434600-211444800	Weak transcription	Esophagus	oesophagus
9	chr1:211434600-211449200	Weak transcription	Colonic Mucosa	Colon
10	chr1:211434600-211453400	Weak transcription	Aorta	Aorta
11	chr1:211434600-211454000	Weak transcription	Pancreas	Pancrea
12	chr1:211434600-211462600	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
13	chr1:211434600-211478200	Weak transcription	ES-WA7 Cell Line	embryonic stem cell
14	chr1:211434800-211442400	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
15	chr1:211434800-211444600	Weak transcription	Duodenum Mucosa	Duodenum
16	chr1:211434800-211444800	Weak transcription	ES-I3 Cell Line	embryonic stem cell
17	chr1:211434800-211444800	Weak transcription	H1 Cell Line	embryonic stem cell
18	chr1:211434800-211444800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
19	chr1:211434800-211444800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr1:211434800-211444800	Weak transcription	Psoas Muscle	Psoas
21	chr1:211434800-211444800	Weak transcription	HUVEC	blood vessel
22	chr1:211434800-211445000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
23	chr1:211434800-211445000	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
24	chr1:211434800-211445000	Weak transcription	Brain Cingulate Gyrus	brain
25	chr1:211434800-211445000	Weak transcription	Left Ventricle	heart
26	chr1:211434800-211453000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
27	chr1:211434800-211453400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr1:211434800-211462600	Weak transcription	H9 Cell Line	embryonic stem cell
29	chr1:211434800-211464800	Weak transcription	Right Ventricle	heart
30	chr1:211434800-211474200	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
31	chr1:211435000-211443200	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
32	chr1:211435000-211443800	Weak transcription	Cortex derived primary cultured neurospheres	brain
33	chr1:211435000-211444400	Weak transcription	Primary T cells from cord blood	blood
34	chr1:211435000-211444400	Weak transcription	Brain Substantia Nigra	brain
35	chr1:211435000-211444400	Weak transcription	Skeletal Muscle Female	skeletal muscle
36	chr1:211435000-211444600	Weak transcription	Brain Anterior Caudate	brain
37	chr1:211435000-211444600	Weak transcription	Brain Germinal Matrix	brain
38	chr1:211435000-211444600	Weak transcription	HepG2	liver
39	chr1:211435000-211444600	Weak transcription	NH-A	brain
40	chr1:211435000-211444800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
41	chr1:211435000-211444800	Weak transcription	Fetal Brain Male	brain
42	chr1:211435000-211444800	Weak transcription	Fetal Brain Female	brain
43	chr1:211435000-211444800	Weak transcription	Fetal Heart	heart
44	chr1:211435000-211444800	Weak transcription	Rectal Smooth Muscle	rectum
45	chr1:211435000-211444800	Weak transcription	Thymus	Thymus
46	chr1:211435000-211444800	Weak transcription	HSMMtube	muscle
47	chr1:211435000-211445000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
48	chr1:211435000-211445000	Weak transcription	Primary T helper naive cells from peripheral blood	blood
49	chr1:211435000-211445000	Weak transcription	Brain Inferior Temporal Lobe	brain
50	chr1:211435000-211445200	Weak transcription	Placenta Amnion	Placenta Amnion

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