Variant report

Variant	rs12906946
Chromosome Location	chr15:75153140-75153141
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:75146905..75149766-chr15:75152301..75155081,2	MCF-7	breast:
2	chr15:75149519..75152391-chr15:75152798..75156514,5	K562	blood:
3	chr15:75152181..75153683-chr15:75192918..75194576,2	K562	blood:
4	chr15:75148295..75153393-chr15:75163740..75167147,7	MCF-7	breast:
5	chr15:75151587..75153625-chr15:75194042..75196404,2	MCF-7	breast:
6	chr15:75152352..75156342-chr15:75158618..75163297,4	K562	blood:

Variant related genes	Relation type
ENSG00000140497	Chromatin interaction

Extended variants
information (count: 16 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:14)

rs_ID	r²[population]
rs12911781	0.80[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs12914369	0.85[EUR][1000 genomes]
rs4886633	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs6495124	0.82[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes];0.96[ASN][1000 genomes]
rs6495126	0.98[AMR][1000 genomes];0.92[EUR][1000 genomes];0.87[ASN][1000 genomes]
rs6495127	0.94[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs6495131	0.81[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs67411922	0.89[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7174968	0.82[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs7495033	0.83[EUR][1000 genomes]
rs7497201	0.94[AMR][1000 genomes];0.89[EUR][1000 genomes]
rs8031937	0.94[AMR][1000 genomes];0.90[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs8042694	0.86[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs936230	0.82[AFR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:2 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv833055	chr15:74988344-75166288	Weak transcription Active TSS Genic enhancers Flanking Active TSS Strong transcription Enhancers Bivalent Enhancer Bivalent/Poised TSS Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	46 gene(s)	inside rSNPs	diseases
2	nsv904381	chr15:75108636-75242155	Weak transcription Genic enhancers Enhancers Flanking Active TSS Active TSS Strong transcription ZNF genes & repeats Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	55 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs12906946	ULK3	cis	Whole Blood	GTEx
rs12906946	MPI	Cis_1M	lymphoblastoid	RTeQTL

Chromatin state (count:123 , 50 per page) page: 1 2 3

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:75136200-75155800	Weak transcription	NH-A	brain
2	chr15:75136200-75160000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
3	chr15:75136200-75161800	Weak transcription	Fetal Kidney	kidney
4	chr15:75136400-75158000	Weak transcription	NHDF-Ad	bronchial
5	chr15:75136600-75163000	Weak transcription	Fetal Brain Male	brain
6	chr15:75137000-75164800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
7	chr15:75143600-75163000	Weak transcription	iPS-15b Cell Line	embryonic stem cell
8	chr15:75145000-75160000	Weak transcription	HUES64 Cell Line	embryonic stem cell
9	chr15:75145400-75155200	Weak transcription	HMEC	breast
10	chr15:75146000-75158200	Weak transcription	NHLF	lung
11	chr15:75146000-75164800	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
12	chr15:75146200-75155600	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
13	chr15:75146200-75163200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
14	chr15:75146400-75155600	Weak transcription	Osteobl	bone
15	chr15:75146400-75155800	Weak transcription	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
16	chr15:75146400-75158400	Weak transcription	HUVEC	blood vessel
17	chr15:75146400-75160400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
18	chr15:75146400-75161800	Weak transcription	Fetal Lung	lung
19	chr15:75146400-75163200	Weak transcription	H1 Cell Line	embryonic stem cell
20	chr15:75146600-75159400	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
21	chr15:75146600-75159400	Weak transcription	HUES48 Cell Line	embryonic stem cell
22	chr15:75146600-75160000	Weak transcription	HUES6 Cell Line	embryonic stem cell
23	chr15:75146600-75163000	Weak transcription	H9 Cell Line	embryonic stem cell
24	chr15:75146600-75164600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
25	chr15:75146800-75155800	Weak transcription	Muscle Satellite Cultured Cells	--
26	chr15:75146800-75158600	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
27	chr15:75146800-75159800	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
28	chr15:75147000-75158400	Weak transcription	Liver	Liver
29	chr15:75147000-75159600	Weak transcription	Fetal Brain Female	brain
30	chr15:75147000-75160000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
31	chr15:75147000-75164800	Weak transcription	Ovary	ovary
32	chr15:75147200-75153600	Weak transcription	Primary neutrophils fromperipheralblood	blood
33	chr15:75147200-75159400	Weak transcription	Thymus	Thymus
34	chr15:75147200-75164800	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
35	chr15:75149800-75155800	Weak transcription	HSMM	muscle
36	chr15:75150000-75156000	Weak transcription	HSMMtube	muscle
37	chr15:75150000-75158400	Weak transcription	A549	lung
38	chr15:75150000-75158600	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
39	chr15:75150000-75160000	Weak transcription	Rectal Smooth Muscle	rectum
40	chr15:75150000-75160200	Weak transcription	Cortex derived primary cultured neurospheres	brain
41	chr15:75150200-75157800	Weak transcription	Placenta Amnion	Placenta Amnion
42	chr15:75150200-75160200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
43	chr15:75150400-75159600	Weak transcription	Dnd41	blood
44	chr15:75150400-75161800	Weak transcription	Aorta	Aorta
45	chr15:75150600-75155800	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
46	chr15:75150600-75155800	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
47	chr15:75150600-75156000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
48	chr15:75150600-75156000	Weak transcription	Monocytes-CD14+_RO01746	blood
49	chr15:75150600-75159600	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
50	chr15:75150600-75159600	Weak transcription	K562	blood

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