Variant report

Variant	rs58260073
Chromosome Location	chr14:55768147-55768148
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr14:55738555..55739114-chr14:55768023..55768553,2	MCF-7	breast:
2	chr14:55736795..55740558-chr14:55765144..55770564,6	K562	blood:
3	chr14:55739383..55741164-chr14:55767168..55768699,2	MCF-7	breast:

Variant related genes	Relation type
ENSG00000178974	Chromatin interaction
ENSG00000258413	Chromatin interaction

Extended variants
information (count: 152 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:151)

rs_ID	r²[population]
rs10129505	0.95[ASN][1000 genomes]
rs10131730	0.81[ASN][1000 genomes]
rs10131913	0.92[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs10131926	0.89[EUR][1000 genomes]
rs10132453	0.81[ASN][1000 genomes]
rs10134317	0.95[ASN][1000 genomes]
rs10136596	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10137307	0.81[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10139000	0.82[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10139083	0.94[AMR][1000 genomes];0.99[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10139337	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10139678	0.95[AMR][1000 genomes];0.94[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10139683	0.91[ASN][1000 genomes]
rs10140063	0.86[ASN][1000 genomes]
rs10140801	0.90[EUR][1000 genomes]
rs10140869	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10141396	0.82[ASN][1000 genomes]
rs10141483	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs10141552	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs10142448	0.84[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10142547	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10142803	0.94[ASN][1000 genomes]
rs10142823	0.92[EUR][1000 genomes]
rs10143136	0.93[ASN][1000 genomes]
rs10144345	0.81[EUR][1000 genomes]
rs10144418	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10145203	0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs10146637	0.93[ASN][1000 genomes]
rs10147765	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10149420	0.81[EUR][1000 genomes]
rs10150699	0.92[EUR][1000 genomes]
rs10150760	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1045002	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs10467798	0.91[EUR][1000 genomes]
rs1109170	0.93[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs11158034	0.93[ASN][1000 genomes]
rs11158037	0.81[ASN][1000 genomes]
rs11547116	0.93[EUR][1000 genomes]
rs11625001	0.93[AFR][1000 genomes];0.97[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11625423	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11626751	0.83[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs11628437	0.92[AFR][1000 genomes];0.95[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs11848456	0.94[ASN][1000 genomes]
rs11848575	0.94[ASN][1000 genomes]
rs11851169	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs12050099	0.93[AMR][1000 genomes];0.97[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs12050123	0.81[ASN][1000 genomes]
rs13379169	0.94[EUR][1000 genomes];0.80[ASN][1000 genomes]
rs1572611	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs17128440	0.81[EUR][1000 genomes]
rs17674463	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17674563	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs17740551	0.93[ASN][1000 genomes]
rs17740741	0.93[AMR][1000 genomes];0.95[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs17741542	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs17741831	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs1952087	0.87[EUR][1000 genomes]
rs1972221	0.95[ASN][1000 genomes]
rs2009291	0.80[EUR][1000 genomes]
rs2016931	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs2026633	0.94[ASN][1000 genomes]
rs2209808	0.81[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs2297816	0.81[ASN][1000 genomes]
rs2341621	0.92[EUR][1000 genomes]
rs2341622	0.92[EUR][1000 genomes]
rs28428911	0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28430823	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28493647	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28504448	0.88[AMR][1000 genomes];0.87[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs28568813	0.92[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28612464	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs28631821	0.81[EUR][1000 genomes]
rs28660594	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs28716725	0.81[EUR][1000 genomes]
rs2880103	0.89[ASN][1000 genomes]
rs35112084	0.95[ASN][1000 genomes]
rs3742569	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs3783648	0.81[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs3783650	0.81[EUR][1000 genomes]
rs3783652	0.81[AMR][1000 genomes];0.84[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs4366639	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4496026	0.85[AFR][1000 genomes];0.89[AMR][1000 genomes];0.96[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs4580079	0.95[ASN][1000 genomes]
rs4597235	0.81[EUR][1000 genomes]
rs56166765	0.84[ASN][1000 genomes]
rs56949365	0.82[AFR][1000 genomes];0.87[AMR][1000 genomes];0.95[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs58296156	0.81[ASN][1000 genomes]
rs58458194	0.94[ASN][1000 genomes]
rs59629906	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59871474	0.92[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs60248556	0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs61210954	0.96[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs6573009	0.87[EUR][1000 genomes]
rs6573010	0.89[EUR][1000 genomes]
rs6573014	0.93[EUR][1000 genomes]
rs6573017	0.80[EUR][1000 genomes]
rs6573020	0.82[EUR][1000 genomes]
rs66464079	0.96[ASN][1000 genomes]
rs66551709	0.95[ASN][1000 genomes]
rs66696758	0.99[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67386901	0.95[ASN][1000 genomes]
rs67514154	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs67795323	0.95[ASN][1000 genomes]
rs67822108	0.94[ASN][1000 genomes]
rs68046603	0.91[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs68138420	0.95[ASN][1000 genomes]
rs7140628	0.96[ASN][1000 genomes]
rs7142857	0.88[EUR][1000 genomes]
rs7144292	0.86[EUR][1000 genomes]
rs7144737	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7146748	0.94[EUR][1000 genomes]
rs7146752	0.93[EUR][1000 genomes]
rs7147136	0.81[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7147247	0.95[ASN][1000 genomes]
rs7148171	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7150234	0.87[ASN][1000 genomes]
rs7150763	0.81[ASN][1000 genomes]
rs7151581	0.94[ASN][1000 genomes]
rs7151754	0.94[ASN][1000 genomes]
rs7152390	0.83[ASN][1000 genomes]
rs7153110	0.80[EUR][1000 genomes]
rs7153612	0.94[AFR][1000 genomes];0.91[AMR][1000 genomes];0.97[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs7153645	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs7154796	0.95[ASN][1000 genomes]
rs7154831	0.81[ASN][1000 genomes]
rs7154889	0.81[EUR][1000 genomes]
rs7155954	0.93[ASN][1000 genomes]
rs7157308	0.94[ASN][1000 genomes]
rs7158768	0.96[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs7158791	0.81[ASN][1000 genomes]
rs7158861	0.84[AMR][1000 genomes];0.88[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs7159144	0.80[EUR][1000 genomes]
rs7159824	0.95[ASN][1000 genomes]
rs72715769	0.99[AMR][1000 genomes];0.99[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs73263927	0.93[ASN][1000 genomes]
rs8005450	0.87[ASN][1000 genomes]
rs8006525	0.80[EUR][1000 genomes]
rs8008119	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8011288	0.91[EUR][1000 genomes]
rs8013713	0.84[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs8014477	0.81[ASN][1000 genomes]
rs8014540	0.81[ASN][1000 genomes]
rs8015211	0.81[ASN][1000 genomes]
rs8021583	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.98[EUR][1000 genomes];0.95[ASN][1000 genomes]
rs8022225	0.91[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs9323284	0.81[EUR][1000 genomes]
rs943590	0.94[EUR][1000 genomes]
rs946059	0.81[EUR][1000 genomes]
rs9919923	0.82[ASN][1000 genomes]
rs9919926	0.81[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs9919932	0.82[ASN][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	nsv1039438	chr14:55746585-55886099	Genic enhancers Weak transcription Enhancers Strong transcription Flanking Active TSS ZNF genes & repeats Active TSS Transcr. at gene 5' and 3' Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs58260073	RP11-665C16.6	cis	Muscle Skeletal	GTEx

Chromatin state (count:115 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr14:55739200-55768400	Weak transcription	H1 Cell Line	embryonic stem cell
2	chr14:55740000-55770600	Weak transcription	Colonic Mucosa	Colon
3	chr14:55741000-55773200	Weak transcription	Fetal Muscle Trunk	muscle
4	chr14:55745000-55768400	Weak transcription	Rectal Smooth Muscle	rectum
5	chr14:55745000-55774000	Weak transcription	Liver	Liver
6	chr14:55745200-55778400	Weak transcription	Fetal Thymus	thymus
7	chr14:55745600-55769200	Weak transcription	Primary B cells from peripheral blood	blood
8	chr14:55747400-55768400	Weak transcription	NHLF	lung
9	chr14:55748000-55770000	Weak transcription	Duodenum Mucosa	Duodenum
10	chr14:55749400-55769800	Weak transcription	Primary B cells from cord blood	blood
11	chr14:55752600-55768200	Weak transcription	HSMM	muscle
12	chr14:55754400-55768400	Weak transcription	NHDF-Ad	bronchial
13	chr14:55754800-55778800	Weak transcription	Hela-S3	cervix
14	chr14:55755000-55770600	Weak transcription	Brain Inferior Temporal Lobe	brain
15	chr14:55755000-55774800	Weak transcription	Pancreatic Islets	Pancreatic Islet
16	chr14:55755800-55768400	Weak transcription	Fetal Brain Female	brain
17	chr14:55756400-55779000	Weak transcription	Gastric	stomach
18	chr14:55758800-55769600	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
19	chr14:55759400-55768600	Weak transcription	Stomach Smooth Muscle	stomach
20	chr14:55760400-55768400	Weak transcription	Colon Smooth Muscle	Colon
21	chr14:55761200-55768400	Weak transcription	Ovary	ovary
22	chr14:55761200-55773200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
23	chr14:55761600-55768400	Weak transcription	HSMMtube	muscle
24	chr14:55761800-55768600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
25	chr14:55761800-55772400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
26	chr14:55762000-55778200	Weak transcription	Placenta	Placenta
27	chr14:55762600-55768600	Weak transcription	HUES6 Cell Line	embryonic stem cell
28	chr14:55763400-55771200	Weak transcription	Primary T cells fromperipheralblood	blood
29	chr14:55764000-55768400	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
30	chr14:55764400-55768200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
31	chr14:55764400-55768200	Weak transcription	Brain Substantia Nigra	brain
32	chr14:55764400-55768400	Weak transcription	Brain Angular Gyrus	brain
33	chr14:55764400-55768400	Weak transcription	Brain Anterior Caudate	brain
34	chr14:55764400-55773800	Weak transcription	Fetal Lung	lung
35	chr14:55764600-55768200	Weak transcription	Osteobl	bone
36	chr14:55764600-55768400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
37	chr14:55764600-55768600	Weak transcription	Brain Hippocampus Middle	brain
38	chr14:55764800-55768200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
39	chr14:55764800-55768200	Weak transcription	A549	lung
40	chr14:55764800-55768600	Weak transcription	Rectal Mucosa Donor 29	rectum
41	chr14:55764800-55769800	Weak transcription	Primary T helper naive cells from peripheral blood	blood
42	chr14:55764800-55770000	Weak transcription	Fetal Kidney	kidney
43	chr14:55764800-55772400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
44	chr14:55764800-55773400	Weak transcription	HUVEC	blood vessel
45	chr14:55765000-55768400	Weak transcription	H9 Cell Line	embryonic stem cell
46	chr14:55765000-55768400	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
47	chr14:55765000-55768400	Weak transcription	Duodenum Smooth Muscle	Duodenum
48	chr14:55765000-55768600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
49	chr14:55765000-55768600	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
50	chr14:55765000-55769600	Weak transcription	Primary hematopoietic stem cells	blood

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