Variant report

Variant	rs56277540
Chromosome Location	chr7:110646491-110646492
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	chr7:110644466..110647207-chr7:110661227..110663752,2	MCF-7	breast:
2	chr7:110645729..110647636-chr7:110649973..110652991,3	K562	blood:

Extended variants
information (count: 101 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:84)

rs_ID	r²[population]
rs1008413	0.84[EUR][1000 genomes]
rs10225614	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.93[ASN][1000 genomes]
rs10246351	0.84[EUR][1000 genomes]
rs10260255	0.83[EUR][1000 genomes]
rs10464508	0.87[AMR][1000 genomes];0.96[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs10464637	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs115826	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs12534893	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs12535802	0.94[AMR][1000 genomes];0.98[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs12540013	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs12540274	0.83[AFR][1000 genomes];0.87[AMR][1000 genomes];0.97[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12672824	0.92[AFR][1000 genomes];1.00[AMR][1000 genomes];0.99[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs166308	0.94[EUR][1000 genomes]
rs174074	0.94[EUR][1000 genomes]
rs17438711	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs17527832	0.83[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs17528429	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs17528930	0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs2041531	0.84[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs2109863	0.85[EUR][1000 genomes]
rs2191926	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs2396300	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs258989	0.92[EUR][1000 genomes]
rs258990	0.92[EUR][1000 genomes]
rs258991	0.83[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs258997	0.93[EUR][1000 genomes]
rs258998	0.82[EUR][1000 genomes]
rs258999	0.93[EUR][1000 genomes]
rs259000	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs259002	0.85[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs259003	0.80[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs259004	0.88[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs259006	0.90[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs259008	0.82[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs259009	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs259011	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs259013	0.88[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs259014	0.82[EUR][1000 genomes]
rs259015	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs259017	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs259018	0.83[AMR][1000 genomes];0.93[EUR][1000 genomes]
rs259020	0.92[AMR][1000 genomes];0.95[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs259021	0.89[AMR][1000 genomes];0.94[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs259022	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs4141112	0.89[AFR][1000 genomes];0.94[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4727753	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs4730467	0.86[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs4730468	0.83[EUR][1000 genomes]
rs4730470	0.85[EUR][1000 genomes]
rs4730472	0.85[EUR][1000 genomes]
rs55693011	0.92[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56148096	0.97[AFR][1000 genomes];0.94[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs56160040	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs56379568	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs56907799	0.86[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs57238777	0.87[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58495202	0.84[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs58585976	0.94[AFR][1000 genomes];0.96[AMR][1000 genomes];0.97[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs59086405	0.83[AFR][1000 genomes];0.92[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs60581416	0.87[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs60807734	0.95[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs6466365	0.82[EUR][1000 genomes]
rs6466366	0.82[EUR][1000 genomes]
rs6466368	0.87[AMR][1000 genomes];0.99[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs6466370	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs66596422	0.90[AFR][1000 genomes];1.00[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs67679818	0.95[EUR][1000 genomes]
rs67759016	0.82[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs67798998	0.85[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs6955060	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs6960818	0.84[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs6972608	0.97[AMR][1000 genomes];0.98[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs6978507	1.00[AFR][1000 genomes];0.99[AMR][1000 genomes];0.99[EUR][1000 genomes]
rs725272	0.91[AMR][1000 genomes];0.95[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs73435146	0.84[AMR][1000 genomes];0.95[EUR][1000 genomes]
rs758952	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs758954	0.95[AMR][1000 genomes];0.98[EUR][1000 genomes]
rs7782551	0.85[EUR][1000 genomes]
rs7795011	0.85[EUR][1000 genomes]
rs7796806	0.94[AFR][1000 genomes];0.99[AMR][1000 genomes];0.98[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7809411	0.81[ASN][1000 genomes]
rs876396	0.84[AFR][1000 genomes];0.97[AMR][1000 genomes];0.97[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs917763	0.95[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs9690080	0.91[AMR][1000 genomes];0.98[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:17 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1023596	chr7:109984459-110708071	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Transcr. at gene 5' and 3' Active TSS Genic enhancers Bivalent Enhancer Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
2	nsv539061	chr7:109984459-110708071	Enhancers Active TSS Flanking Active TSS Weak transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
3	nsv531434	chr7:110310931-110839892	Enhancers Active TSS Weak transcription Flanking Active TSS ZNF genes & repeats Strong transcription Genic enhancers Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
4	esv3506497	chr7:110484691-111091738	Weak transcription Enhancers Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Strong transcription Bivalent Enhancer Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
5	esv3506498	chr7:110484750-111091689	Enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3' Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases
6	nsv888973	chr7:110509579-110699652	Weak transcription Enhancers Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
7	nsv888974	chr7:110516659-110660055	Enhancers Weak transcription Flanking Active TSS ZNF genes & repeats Active TSS	TF binding region CpG island Chromatin interactive region	3 gene(s)	inside rSNPs	diseases
8	esv2758129	chr7:110523298-110787849	ZNF genes & repeats Enhancers Weak transcription Flanking Active TSS Active TSS Genic enhancers Strong transcription Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
9	esv2759554	chr7:110523298-110787849	Enhancers Weak transcription Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers Bivalent/Poised TSS Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
10	nsv1031546	chr7:110549137-110978256	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases
11	nsv817555	chr7:110564801-110990927	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
12	nsv1033286	chr7:110588021-110990928	Enhancers Weak transcription ZNF genes & repeats Active TSS Flanking Active TSS Strong transcription Flanking Bivalent TSS/Enh Genic enhancers Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
13	nsv539063	chr7:110588021-110990928	Weak transcription Enhancers Flanking Active TSS Active TSS ZNF genes & repeats Strong transcription Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	4 gene(s)	inside rSNPs	diseases
14	nsv931978	chr7:110607590-111092490	Enhancers Weak transcription Active TSS Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	7 gene(s)	inside rSNPs	diseases
15	nsv1025987	chr7:110609568-111258501	Weak transcription Active TSS Enhancers Strong transcription Flanking Bivalent TSS/Enh Flanking Active TSS ZNF genes & repeats Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	21 gene(s)	inside rSNPs	diseases
16	nsv888975	chr7:110613685-110677656	Weak transcription Flanking Active TSS Enhancers Active TSS ZNF genes & repeats	Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
17	esv2830178	chr7:110645431-110778571	Weak transcription Enhancers Flanking Active TSS Active TSS Genic enhancers Strong transcription ZNF genes & repeats Flanking Bivalent TSS/Enh Bivalent/Poised TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs56277540	IMMP2L	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:19 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr7:110636600-110657600	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
2	chr7:110643000-110648400	Weak transcription	Primary T killer memory cells from peripheral blood	blood
3	chr7:110643200-110648400	Weak transcription	Primary T helper naive cells from peripheral blood	blood
4	chr7:110644600-110649200	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
5	chr7:110645000-110647000	Enhancers	Primary T cells from cord blood	blood
6	chr7:110645000-110649800	Weak transcription	Fetal Intestine Large	intestine
7	chr7:110645000-110650800	Weak transcription	Fetal Intestine Small	intestine
8	chr7:110645400-110646600	Enhancers	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
9	chr7:110645800-110646600	Enhancers	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
10	chr7:110645800-110646600	Enhancers	NHLF	lung
11	chr7:110645800-110647000	Enhancers	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
12	chr7:110645800-110648800	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
13	chr7:110646000-110647200	Enhancers	NHDF-Ad	bronchial
14	chr7:110646000-110647400	Enhancers	Placenta Amnion	Placenta Amnion
15	chr7:110646200-110648200	Weak transcription	Primary T helper naive cells fromperipheralblood	blood
16	chr7:110646200-110648200	Weak transcription	Primary T helper cells PMA-I stimulated	--
17	chr7:110646200-110648800	Weak transcription	Primary T helper cells fromperipheralblood	blood
18	chr7:110646200-110660600	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
19	chr7:110646400-110646800	Enhancers	NH-A	brain

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