Variant report

Variant	rs12900850
Chromosome Location	chr15:93164216-93164217
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:93162536..93164943-chr15:93249392..93251363,2	MCF-7	breast:
2	chr15:93162245..93164640-chr15:93165176..93167543,2	MCF-7	breast:
3	chr15:93155445..93158286-chr15:93162405..93165146,3	K562	blood:
4	chr15:93154756..93169106-chr15:93177301..93183879,27	MCF-7	breast:

Variant related genes	Relation type
ENSG00000185442	Chromatin interaction

Extended variants
information (count: 17 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:12)

rs_ID	r²[population]
rs2255908	0.90[ASN][1000 genomes]
rs28497802	0.96[ASN][1000 genomes]
rs285710	0.83[ASN][1000 genomes]
rs285711	0.83[ASN][1000 genomes]
rs285712	0.87[ASN][1000 genomes]
rs285716	0.87[ASN][1000 genomes]
rs285719	0.87[ASN][1000 genomes]
rs395678	0.94[ASN][1000 genomes]
rs410363	0.90[ASN][1000 genomes]
rs4777726	0.87[ASN][1000 genomes]
rs6496963	0.96[ASN][1000 genomes]
rs6496964	0.96[ASN][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:5 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1037972	chr15:92804908-93270761	Flanking Bivalent TSS/Enh Enhancers Weak transcription Strong transcription Flanking Active TSS Bivalent Enhancer Active TSS ZNF genes & repeats Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	39 gene(s)	inside rSNPs	diseases
2	nsv904499	chr15:92914795-93472582	Bivalent Enhancer Flanking Active TSS Genic enhancers Strong transcription Active TSS Transcr. at gene 5' and 3' Weak transcription Enhancers Flanking Bivalent TSS/Enh Bivalent/Poised TSS ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	163 gene(s)	inside rSNPs	diseases
3	nsv948738	chr15:93070742-93728147	Strong transcription Weak transcription Flanking Active TSS Enhancers Genic enhancers Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	169 gene(s)	inside rSNPs	diseases
4	nsv1049490	chr15:93134405-93591660	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS ZNF genes & repeats Flanking Active TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	151 gene(s)	inside rSNPs	diseases
5	esv1808537	chr15:93146057-93191935	Strong transcription Enhancers Weak transcription Flanking Active TSS Genic enhancers Bivalent Enhancer ZNF genes & repeats Active TSS Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	9 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs12900850	RP11-386M24.3	cis	Heart Left Ventricle	GTEx

Chromatin state (count:76 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93151400-93167400	Weak transcription	Brain Germinal Matrix	brain
2	chr15:93151600-93178000	Weak transcription	iPS DF 6.9 Cell Line	embryonic stem cell
3	chr15:93152800-93166800	Weak transcription	Esophagus	oesophagus
4	chr15:93156000-93167000	Weak transcription	Brain Anterior Caudate	brain
5	chr15:93156400-93167600	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
6	chr15:93156600-93168400	Weak transcription	Pancreatic Islets	Pancreatic Islet
7	chr15:93156800-93166600	Weak transcription	Brain Cingulate Gyrus	brain
8	chr15:93158000-93167600	Enhancers	Fetal Muscle Trunk	muscle
9	chr15:93158400-93164600	Enhancers	Fetal Muscle Leg	muscle
10	chr15:93158400-93167600	Weak transcription	Spleen	Spleen
11	chr15:93158600-93169800	Weak transcription	Primary T cells from cord blood	blood
12	chr15:93159400-93166400	Weak transcription	Fetal Thymus	thymus
13	chr15:93159600-93165200	Enhancers	HUVEC	blood vessel
14	chr15:93160200-93172800	Weak transcription	Sigmoid Colon	Sigmoid Colon
15	chr15:93160800-93164600	Strong transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
16	chr15:93160800-93166000	Enhancers	Stomach Mucosa	stomach
17	chr15:93160800-93168600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
18	chr15:93161200-93166800	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
19	chr15:93161200-93167200	Weak transcription	Lung	lung
20	chr15:93161200-93170200	Weak transcription	HUES64 Cell Line	embryonic stem cell
21	chr15:93161200-93170400	Weak transcription	Duodenum Mucosa	Duodenum
22	chr15:93161200-93173000	Weak transcription	H1 Cell Line	embryonic stem cell
23	chr15:93161400-93164600	Enhancers	Muscle Satellite Cultured Cells	--
24	chr15:93161400-93178000	Weak transcription	HUES48 Cell Line	embryonic stem cell
25	chr15:93161600-93164400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
26	chr15:93161800-93165000	Enhancers	Stomach Smooth Muscle	stomach
27	chr15:93161800-93165400	Weak transcription	Fetal Intestine Small	intestine
28	chr15:93161800-93166000	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr15:93161800-93168000	Weak transcription	ES-I3 Cell Line	embryonic stem cell
30	chr15:93161800-93172600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
31	chr15:93162000-93167600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
32	chr15:93162200-93166400	Weak transcription	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
33	chr15:93162400-93172000	Weak transcription	iPS-20b Cell Line	embryonic stem cell
34	chr15:93162600-93166800	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
35	chr15:93162600-93167400	Weak transcription	Rectal Mucosa Donor 29	rectum
36	chr15:93162600-93168000	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
37	chr15:93162600-93168600	Weak transcription	HUES6 Cell Line	embryonic stem cell
38	chr15:93163000-93165200	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
39	chr15:93163000-93168000	Weak transcription	Rectal Mucosa Donor 31	rectum
40	chr15:93163200-93166000	Weak transcription	Right Ventricle	heart
41	chr15:93163200-93166800	Weak transcription	Fetal Intestine Large	intestine
42	chr15:93163200-93166800	Weak transcription	K562	blood
43	chr15:93163200-93167600	Weak transcription	Aorta	Aorta
44	chr15:93163200-93168600	Weak transcription	A549	lung
45	chr15:93163400-93165000	Weak transcription	GM12878-XiMat	blood
46	chr15:93163400-93165400	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
47	chr15:93163400-93165800	Weak transcription	Brain Hippocampus Middle	brain
48	chr15:93163400-93165800	Weak transcription	HSMMtube	muscle
49	chr15:93163400-93166600	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
50	chr15:93163400-93166600	Weak transcription	Fetal Heart	heart

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