Variant report

Variant	rs2236599
Chromosome Location	chr9:110249505-110249506
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

TF binding
region (count:0)
CpG islands
(count:0)
Chromatin interactive
region (count:18)
LncRNA
region (count:0)
Mature miRNA
region (count: 0)
miRNA target
sites (count:0)

No data

(count:18 , 50 per page) page: 1

No.	Distal block	Cell Line	Cell type
1	chr9:110247849..110250590-chr9:111329415..111332131,3	MCF-7	breast:
2	chr9:110248541..110250333-chr9:110285200..110286705,2	MCF-7	breast:
3	chr9:110243041..110245201-chr9:110246252..110249576,3	K562	blood:
4	chr9:110248220..110250527-chr9:111302470..111304423,3	MCF-7	breast:
5	chr9:109425556..109427280-chr9:110248781..110250709,2	MCF-7	breast:
6	chr6:27114514..27116900-chr9:110249066..110251372,2	MCF-7	breast:
7	chr9:110184526..110185075-chr9:110249421..110250069,3	MCF-7	breast:
8	chr9:110247496..110249786-chr9:111257923..111260578,2	MCF-7	breast:
9	chr9:110248605..110250352-chr9:110763897..110765598,2	MCF-7	breast:
10	chr9:110248029..110249543-chr9:110331066..110332921,2	MCF-7	breast:
11	chr9:110189538..110195123-chr9:110249494..110254933,10	MCF-7	breast:
12	chr9:110246769..110253919-chr9:110298442..110306182,20	MCF-7	breast:
13	chr9:110249421..110250120-chr9:110279381..110280253,2	MCF-7	breast:
14	chr9:110246987..110249540-chr9:110886248..110888523,2	MCF-7	breast:
15	chr9:110247156..110249811-chr9:110250115..110251860,2	K562	blood:
16	chr9:110242425..110245039-chr9:110248076..110250038,3	K562	blood:
17	chr9:110247513..110249830-chr9:110339098..110341617,2	MCF-7	breast:
18	chr9:110248818..110250564-chr9:110802870..110804460,2	MCF-7	breast:

No data

Variant related genes	Relation type
ENSG00000265565	Chromatin interaction
ENSG00000136826	Chromatin interaction
ENSG00000226825	Chromatin interaction
ENSG00000227350	Chromatin interaction
ENSG00000184825	Chromatin interaction
ENSG00000234229	Chromatin interaction
ENSG00000197903	Chromatin interaction

Extended variants
information (count: 6 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:4)

rs_ID	r²[population]
rs10978886	0.81[AMR][1000 genomes];0.88[EUR][1000 genomes]
rs58843994	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs62570074	0.81[AMR][1000 genomes];0.85[EUR][1000 genomes]
rs7033991	0.81[EUR][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	nsv530948	chr9:109760752-110413602	Weak transcription Flanking Active TSS Enhancers Active TSS Genic enhancers Strong transcription Flanking Bivalent TSS/Enh Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	57 gene(s)	inside rSNPs	diseases
2	nsv825028	chr9:110248596-110252543	Bivalent/Poised TSS Flanking Bivalent TSS/Enh Active TSS Weak transcription Flanking Active TSS Transcr. at gene 5' and 3' Enhancers Bivalent Enhancer Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region	24 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:98 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:110243000-110249600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
2	chr9:110244000-110250400	Weak transcription	HSMMtube	muscle
3	chr9:110246000-110249800	Transcr. at gene 5' and 3'	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
4	chr9:110246200-110253800	Active TSS	Right Atrium	heart
5	chr9:110247000-110249600	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
6	chr9:110247000-110249800	Transcr. at gene 5' and 3'	Rectal Mucosa Donor 29	rectum
7	chr9:110247000-110249800	Transcr. at gene 5' and 3'	Monocytes-CD14+_RO01746	blood
8	chr9:110247000-110250600	Transcr. at gene 5' and 3'	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
9	chr9:110247200-110249600	Transcr. at gene 5' and 3'	NHEK	skin
10	chr9:110247200-110250000	Transcr. at gene 5' and 3'	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
11	chr9:110247200-110250400	Transcr. at gene 5' and 3'	Adipose Nuclei	Adipose
12	chr9:110247200-110250600	Transcr. at gene 5' and 3'	Foreskin Keratinocyte Primary Cells skin03	Skin
13	chr9:110247200-110250800	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin01	Skin
14	chr9:110247200-110254000	Active TSS	Duodenum Smooth Muscle	Duodenum
15	chr9:110247400-110249600	Transcr. at gene 5' and 3'	Placenta Amnion	Placenta Amnion
16	chr9:110247400-110249600	Transcr. at gene 5' and 3'	NHDF-Ad	bronchial
17	chr9:110247400-110249800	Transcr. at gene 5' and 3'	Primary monocytes fromperipheralblood	blood
18	chr9:110247400-110251400	Transcr. at gene 5' and 3'	Rectal Mucosa Donor 31	rectum
19	chr9:110247400-110253800	Active TSS	Psoas Muscle	Psoas
20	chr9:110247600-110250400	Transcr. at gene 5' and 3'	Stomach Smooth Muscle	stomach
21	chr9:110247600-110250600	Active TSS	Brain Hippocampus Middle	brain
22	chr9:110247600-110250600	Active TSS	Small Intestine	intestine
23	chr9:110247600-110250600	Transcr. at gene 5' and 3'	NHLF	lung
24	chr9:110248000-110250800	Transcr. at gene 5' and 3'	Foreskin Fibroblast Primary Cells skin02	Skin
25	chr9:110248200-110250400	Weak transcription	Aorta	Aorta
26	chr9:110248400-110250000	Active TSS	Brain Dorsolateral Prefrontal Cortex	brain
27	chr9:110248400-110254200	Bivalent/Poised TSS	iPS-15b Cell Line	embryonic stem cell
28	chr9:110248600-110250800	Transcr. at gene 5' and 3'	Sigmoid Colon	Sigmoid Colon
29	chr9:110248600-110252800	Active TSS	Brain Cingulate Gyrus	brain
30	chr9:110248800-110249800	Transcr. at gene 5' and 3'	Placenta	Placenta
31	chr9:110248800-110249800	Flanking Active TSS	Hela-S3	cervix
32	chr9:110248800-110250200	Transcr. at gene 5' and 3'	Rectal Smooth Muscle	rectum
33	chr9:110249000-110249600	Transcr. at gene 5' and 3'	Colon Smooth Muscle	Colon
34	chr9:110249000-110249600	Flanking Bivalent TSS/Enh	Fetal Lung	lung
35	chr9:110249000-110249800	Bivalent Enhancer	Primary B cells from cord blood	blood
36	chr9:110249000-110249800	Flanking Bivalent TSS/Enh	Fetal Stomach	stomach
37	chr9:110249000-110249800	Transcr. at gene 5' and 3'	Stomach Mucosa	stomach
38	chr9:110249000-110250000	Transcr. at gene 5' and 3'	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
39	chr9:110249000-110250000	Transcr. at gene 5' and 3'	Duodenum Mucosa	Duodenum
40	chr9:110249000-110250200	Transcr. at gene 5' and 3'	Ovary	ovary
41	chr9:110249000-110250400	Transcr. at gene 5' and 3'	IMR90 fetal lung fibroblasts Cell Line	lung
42	chr9:110249000-110250800	Flanking Bivalent TSS/Enh	Fetal Muscle Leg	muscle
43	chr9:110249000-110251000	Transcr. at gene 5' and 3'	Esophagus	oesophagus
44	chr9:110249000-110251000	Transcr. at gene 5' and 3'	Lung	lung
45	chr9:110249000-110251000	Transcr. at gene 5' and 3'	Skeletal Muscle Male	skeletal muscle
46	chr9:110249000-110251600	Flanking Bivalent TSS/Enh	Fetal Muscle Trunk	muscle
47	chr9:110249000-110251800	Bivalent/Poised TSS	ES-I3 Cell Line	embryonic stem cell
48	chr9:110249000-110251800	Transcr. at gene 5' and 3'	Colonic Mucosa	Colon
49	chr9:110249000-110251800	Flanking Bivalent TSS/Enh	Fetal Adrenal Gland	Adrenal Gland
50	chr9:110249000-110252600	Active TSS	Osteobl	bone

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links