Variant report

Variant	rs56907673
Chromosome Location	chr10:27357730-27357731
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr10:27353136..27355014-chr10:27355485..27358702,3	MCF-7	breast:

Extended variants
information (count: 58 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:57)

rs_ID	r²[population]
rs10443967	0.91[ASN][1000 genomes]
rs10764670	0.93[ASN][1000 genomes]
rs10829158	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs10829167	0.81[AFR][1000 genomes]
rs10829170	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs10829171	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10829178	0.93[ASN][1000 genomes]
rs11015444	0.83[AMR][1000 genomes]
rs11015445	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs11015448	0.83[AMR][1000 genomes]
rs11015465	0.87[AMR][1000 genomes]
rs11015466	0.87[AMR][1000 genomes]
rs11015468	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs11015471	0.87[AMR][1000 genomes]
rs11015474	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11015476	0.87[AMR][1000 genomes]
rs11015477	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs11015478	0.87[AMR][1000 genomes]
rs11015482	0.94[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs11015483	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11015487	0.81[EUR][1000 genomes]
rs11015490	0.84[EUR][1000 genomes]
rs11015491	0.84[EUR][1000 genomes]
rs11015492	0.84[EUR][1000 genomes]
rs11015493	0.84[EUR][1000 genomes]
rs11015495	0.84[EUR][1000 genomes]
rs11015496	0.83[EUR][1000 genomes]
rs11015497	0.84[EUR][1000 genomes]
rs11015498	0.84[EUR][1000 genomes]
rs11015499	0.84[EUR][1000 genomes]
rs11015500	0.84[EUR][1000 genomes]
rs11015501	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11015502	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs11015508	0.95[ASN][1000 genomes]
rs12354715	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs12354840	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12354861	0.83[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs12354955	0.84[AMR][1000 genomes];0.83[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs12355227	0.87[AMR][1000 genomes]
rs12357873	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12358854	0.87[AMR][1000 genomes];0.81[EUR][1000 genomes]
rs12569476	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1854646	0.96[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs2274742	0.83[AMR][1000 genomes]
rs3781098	0.92[AMR][1000 genomes];0.85[EUR][1000 genomes];0.86[ASN][1000 genomes]
rs4747583	0.96[AMR][1000 genomes];1.00[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs4749220	0.84[EUR][1000 genomes]
rs60521923	0.99[AFR][1000 genomes];1.00[AMR][1000 genomes];1.00[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs61081993	0.83[AMR][1000 genomes]
rs6482590	0.83[AMR][1000 genomes]
rs7080104	0.84[EUR][1000 genomes]
rs7083360	0.84[EUR][1000 genomes]
rs7083739	0.87[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs7900343	0.81[AFR][1000 genomes];0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7907257	0.96[AMR][1000 genomes];0.85[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs7922043	0.93[ASN][1000 genomes]
rs9731878	0.84[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	nsv894979	chr10:27325119-27375411	Strong transcription Weak transcription Genic enhancers Enhancers ZNF genes & repeats Active TSS Flanking Active TSS Transcr. at gene 5' and 3'	TF binding region Chromatin interactive region lncRNA	2 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs56907673	YME1L1	Cis_1M	lymphoblastoid	RTeQTL
rs56907673	MASTL	cis	lung	GTEx

Chromatin state (count:119 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:27283200-27388400	Weak transcription	Psoas Muscle	Psoas
2	chr10:27289200-27361200	Weak transcription	Brain Cingulate Gyrus	brain
3	chr10:27289600-27360800	Weak transcription	Hela-S3	cervix
4	chr10:27289800-27360800	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
5	chr10:27290200-27361400	Weak transcription	Placenta	Placenta
6	chr10:27291400-27360600	Weak transcription	Lung	lung
7	chr10:27291600-27388000	Weak transcription	Small Intestine	intestine
8	chr10:27292000-27362200	Weak transcription	Fetal Brain Male	brain
9	chr10:27303600-27361000	Weak transcription	Rectal Smooth Muscle	rectum
10	chr10:27306000-27360800	Weak transcription	Esophagus	oesophagus
11	chr10:27312800-27358200	Strong transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
12	chr10:27313200-27363400	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
13	chr10:27313200-27388200	Weak transcription	Primary T helper naive cells from peripheral blood	blood
14	chr10:27313200-27388600	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
15	chr10:27313400-27388400	Weak transcription	Placenta Amnion	Placenta Amnion
16	chr10:27314600-27388800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
17	chr10:27319000-27360400	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
18	chr10:27323400-27388600	Weak transcription	H9 Cell Line	embryonic stem cell
19	chr10:27323600-27361800	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
20	chr10:27326400-27360600	Weak transcription	Spleen	Spleen
21	chr10:27326600-27366000	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
22	chr10:27326800-27388200	Weak transcription	Brain Substantia Nigra	brain
23	chr10:27327600-27360400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
24	chr10:27328000-27388200	Weak transcription	K562	blood
25	chr10:27329800-27360600	Weak transcription	Skeletal Muscle Male	skeletal muscle
26	chr10:27330200-27381400	Weak transcription	HSMMtube	muscle
27	chr10:27330400-27360400	Weak transcription	NHEK	skin
28	chr10:27330400-27360600	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
29	chr10:27330600-27360800	Weak transcription	Primary T killer memory cells from peripheral blood	blood
30	chr10:27331400-27360600	Weak transcription	Sigmoid Colon	Sigmoid Colon
31	chr10:27331800-27360600	Weak transcription	Pancreas	Pancrea
32	chr10:27332600-27360800	Weak transcription	Primary hematopoietic stem cells	blood
33	chr10:27333000-27360600	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
34	chr10:27333000-27384600	Weak transcription	Fetal Heart	heart
35	chr10:27336200-27360600	Weak transcription	Colon Smooth Muscle	Colon
36	chr10:27341000-27363400	Weak transcription	iPS-18 Cell Line	embryonic stem cell
37	chr10:27341200-27365600	Weak transcription	HUVEC	blood vessel
38	chr10:27341400-27376600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
39	chr10:27342000-27367600	Weak transcription	Stomach Mucosa	stomach
40	chr10:27345600-27358800	Strong transcription	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
41	chr10:27347600-27360800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
42	chr10:27348000-27359600	Strong transcription	Fetal Intestine Large	intestine
43	chr10:27348600-27365600	Weak transcription	HUES48 Cell Line	embryonic stem cell
44	chr10:27348800-27360400	Weak transcription	Colonic Mucosa	Colon
45	chr10:27349800-27360400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
46	chr10:27350000-27362400	Weak transcription	NH-A	brain
47	chr10:27350200-27364000	Weak transcription	NHDF-Ad	bronchial
48	chr10:27350200-27387800	Weak transcription	HMEC	breast
49	chr10:27351400-27360800	Weak transcription	Right Ventricle	heart
50	chr10:27351600-27361000	Weak transcription	HepG2	liver

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