Variant report

Variant	rs11074091
Chromosome Location	chr15:93193926-93193927
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr15:93191617..93195403-chr15:93257490..93261490,4	MCF-7	breast:
2	chr15:93191674..93195100-chr15:93197023..93199781,4	K562	blood:
3	chr15:93191674..93194202-chr15:93197134..93199781,2	K562	blood:

Variant related genes	Relation type
ENSG00000185442	Chromatin interaction

Extended variants
information (count: 12 )
Associated
traits (count: 1 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs12909377	0.86[CHD][hapmap];0.84[JPT][hapmap];0.85[MEX][hapmap];0.84[TSI][hapmap];0.88[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs17647874	0.93[CHB][hapmap];0.89[JPT][hapmap];0.93[AMR][1000 genomes];0.88[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs2173059	0.81[GIH][hapmap];0.81[TSI][hapmap];0.83[EUR][1000 genomes]
rs2201658	0.82[EUR][1000 genomes]
rs285773	0.86[CHB][hapmap];0.81[GIH][hapmap];0.94[JPT][hapmap];0.90[MEX][hapmap];0.81[AMR][1000 genomes];0.81[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs3743360	0.80[MEX][hapmap]
rs57768803	0.86[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	nsv1040501	chr15:93177153-93286393	Weak transcription Flanking Active TSS Enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Active TSS Bivalent/Poised TSS ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	15 gene(s)	inside rSNPs	diseases

mRNA abundance (count:1)

SNP	Gene	Cis/trans	Tissue	Source
rs11074091	RGMA	cis	cerebellum	SCAN

Chromatin state (count:62 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr15:93171000-93197400	Weak transcription	Primary T cells from cord blood	blood
2	chr15:93182000-93197800	Weak transcription	Small Intestine	intestine
3	chr15:93182600-93197200	Weak transcription	Fetal Kidney	kidney
4	chr15:93183200-93198400	Weak transcription	Sigmoid Colon	Sigmoid Colon
5	chr15:93186400-93194200	Weak transcription	Brain Inferior Temporal Lobe	brain
6	chr15:93187400-93194000	Enhancers	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
7	chr15:93187400-93194000	Enhancers	HUES64 Cell Line	embryonic stem cell
8	chr15:93187600-93195800	Weak transcription	Brain Angular Gyrus	brain
9	chr15:93187800-93195600	Weak transcription	Fetal Muscle Trunk	muscle
10	chr15:93189000-93194000	Weak transcription	Primary hematopoietic stem cells	blood
11	chr15:93189000-93195600	Weak transcription	Rectal Mucosa Donor 31	rectum
12	chr15:93189000-93197000	Weak transcription	Brain Hippocampus Middle	brain
13	chr15:93189200-93195200	Weak transcription	Skeletal Muscle Male	skeletal muscle
14	chr15:93189200-93195400	Weak transcription	Right Ventricle	heart
15	chr15:93189400-93194000	Weak transcription	Fetal Muscle Leg	muscle
16	chr15:93189400-93197000	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
17	chr15:93189400-93197000	Weak transcription	Esophagus	oesophagus
18	chr15:93190400-93194200	Enhancers	Gastric	stomach
19	chr15:93190600-93197000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
20	chr15:93190800-93194000	Enhancers	ES-I3 Cell Line	embryonic stem cell
21	chr15:93190800-93195400	Weak transcription	Skeletal Muscle Female	skeletal muscle
22	chr15:93191000-93194000	Enhancers	HUES48 Cell Line	embryonic stem cell
23	chr15:93191000-93194200	Enhancers	HUES6 Cell Line	embryonic stem cell
24	chr15:93191000-93196600	Weak transcription	HSMM	muscle
25	chr15:93191000-93197400	Weak transcription	HSMMtube	muscle
26	chr15:93191400-93194200	Enhancers	Pancreas	Pancrea
27	chr15:93191800-93194200	Enhancers	iPS-18 Cell Line	embryonic stem cell
28	chr15:93191800-93195400	Weak transcription	Fetal Intestine Small	intestine
29	chr15:93192000-93195400	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
30	chr15:93192000-93196800	Weak transcription	Liver	Liver
31	chr15:93192000-93197400	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr15:93192200-93194000	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
33	chr15:93192400-93195400	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
34	chr15:93192800-93195600	Weak transcription	HUVEC	blood vessel
35	chr15:93193000-93195000	Weak transcription	Pancreatic Islets	Pancreatic Islet
36	chr15:93193000-93195200	Weak transcription	H9 Cell Line	embryonic stem cell
37	chr15:93193000-93196200	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
38	chr15:93193400-93194200	Enhancers	Fetal Stomach	stomach
39	chr15:93193400-93195000	ZNF genes & repeats	GM12878-XiMat	blood
40	chr15:93193600-93194000	Enhancers	iPS DF 6.9 Cell Line	embryonic stem cell
41	chr15:93193600-93194000	Enhancers	Stomach Mucosa	stomach
42	chr15:93193600-93194000	Flanking Active TSS	Stomach Smooth Muscle	stomach
43	chr15:93193600-93194200	Enhancers	Breast Myoepithelial Primary Cells	Breast
44	chr15:93193600-93194200	Enhancers	Fetal Lung	lung
45	chr15:93193600-93194200	Enhancers	Left Ventricle	heart
46	chr15:93193600-93194200	Enhancers	Lung	lung
47	chr15:93193600-93194200	Enhancers	Ovary	ovary
48	chr15:93193600-93194400	Genic enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
49	chr15:93193600-93194400	Enhancers	Colon Smooth Muscle	Colon
50	chr15:93193600-93194800	Enhancers	Placenta	Placenta

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