Variant report

Variant	rs10809924
Chromosome Location	chr9:13269740-13269741
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type	Cell Stage
1	chr9:13266536..13270627-chr9:13277145..13281714,5	K562	blood:
2	chr9:13267404..13273261-chr9:13274037..13279578,8	K562	blood:

Variant related genes	Relation type
ENSG00000107186	Chromatin interaction
ENSG00000234740	Chromatin interaction

Extended variants
information (count: 15 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:11)

rs_ID	r²[population]
rs10756465	0.82[CHB][hapmap];0.82[GIH][hapmap]
rs10809922	0.94[ASN][1000 genomes]
rs10960985	0.94[ASN][1000 genomes]
rs11793993	0.99[ASN][1000 genomes]
rs1330133	0.87[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs1330139	0.92[AMR][1000 genomes]
rs17273898	0.82[CHB][hapmap]
rs6474759	0.91[CEU][hapmap];1.00[CHB][hapmap];0.95[CHD][hapmap];0.93[GIH][hapmap];1.00[JPT][hapmap];0.87[TSI][hapmap];0.94[AMR][1000 genomes];0.91[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7041374	0.82[ASW][hapmap];0.83[CEU][hapmap];1.00[CHB][hapmap];0.88[CHD][hapmap];0.91[GIH][hapmap];0.95[JPT][hapmap];0.87[TSI][hapmap];0.84[AMR][1000 genomes];0.87[EUR][1000 genomes];0.92[ASN][1000 genomes]
rs7048187	0.86[EUR][1000 genomes];0.94[ASN][1000 genomes]
rs7863888	0.82[CHB][hapmap]

Variant overlapped rSNPs/rCNVs (count:4 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv892578	chr9:12942956-13485035	Enhancers Genic enhancers Weak transcription Strong transcription Active TSS Flanking Active TSS ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	10 gene(s)	inside rSNPs	diseases
2	nsv892583	chr9:13166139-13350478	Weak transcription Enhancers Strong transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Genic enhancers Transcr. at gene 5' and 3' ZNF genes & repeats Bivalent/Poised TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
3	nsv892584	chr9:13214871-13350478	Enhancers Active TSS Weak transcription Flanking Active TSS Strong transcription ZNF genes & repeats Genic enhancers Bivalent Enhancer Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases
4	nsv427838	chr9:13229753-13393890	Enhancers Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers ZNF genes & repeats Strong transcription Bivalent/Poised TSS Bivalent Enhancer Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	5 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:57 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:13226800-13278000	Weak transcription	Fetal Adrenal Gland	Adrenal Gland
2	chr9:13240000-13278000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
3	chr9:13255000-13277200	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived
4	chr9:13256600-13269800	Weak transcription	Pancreatic Islets	Pancreatic Islet
5	chr9:13256800-13277600	Weak transcription	Fetal Muscle Leg	muscle
6	chr9:13264800-13269800	Enhancers	Rectal Smooth Muscle	rectum
7	chr9:13265600-13278200	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
8	chr9:13265800-13271800	Weak transcription	Right Ventricle	heart
9	chr9:13265800-13275000	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
10	chr9:13265800-13275000	Weak transcription	Fetal Stomach	stomach
11	chr9:13266000-13275000	Weak transcription	Brain Angular Gyrus	brain
12	chr9:13266200-13275000	Weak transcription	Right Atrium	heart
13	chr9:13267000-13271200	Weak transcription	Brain Hippocampus Middle	brain
14	chr9:13267000-13274800	Weak transcription	Adipose Nuclei	Adipose
15	chr9:13267000-13275000	Weak transcription	Brain Germinal Matrix	brain
16	chr9:13267000-13275000	Weak transcription	Brain Inferior Temporal Lobe	brain
17	chr9:13267000-13275000	Weak transcription	Skeletal Muscle Female	skeletal muscle
18	chr9:13267200-13269800	Enhancers	HUES6 Cell Line	embryonic stem cell
19	chr9:13267600-13270000	Enhancers	Breast Myoepithelial Primary Cells	Breast
20	chr9:13267800-13271000	Enhancers	HUVEC	blood vessel
21	chr9:13267800-13274000	Weak transcription	Colon Smooth Muscle	Colon
22	chr9:13267800-13274200	Weak transcription	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
23	chr9:13268000-13271800	Weak transcription	H1 BMP4 Derived Mesendoderm Cultured Cells	ES cell derived
24	chr9:13268000-13274800	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
25	chr9:13268000-13275000	Weak transcription	K562	blood
26	chr9:13268200-13274600	Weak transcription	HSMM	muscle
27	chr9:13268600-13270200	Enhancers	Duodenum Smooth Muscle	Duodenum
28	chr9:13268600-13272000	Weak transcription	HUES64 Cell Line	embryonic stem cell
29	chr9:13268800-13270000	Enhancers	Brain Substantia Nigra	brain
30	chr9:13268800-13270000	Enhancers	Fetal Heart	heart
31	chr9:13268800-13270200	Enhancers	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
32	chr9:13268800-13270200	Enhancers	Foreskin Melanocyte Primary Cells skin03	Skin
33	chr9:13268800-13270200	Enhancers	Brain Dorsolateral Prefrontal Cortex	brain
34	chr9:13268800-13271800	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
35	chr9:13268800-13272200	Weak transcription	iPS-20b Cell Line	embryonic stem cell
36	chr9:13268800-13275000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
37	chr9:13268800-13275000	Weak transcription	Ovary	ovary
38	chr9:13268800-13278000	Weak transcription	H1 Cell Line	embryonic stem cell
39	chr9:13268800-13278000	Weak transcription	H9 Cell Line	embryonic stem cell
40	chr9:13269000-13270200	Enhancers	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived
41	chr9:13269000-13270200	Enhancers	A549	lung
42	chr9:13269000-13271400	Weak transcription	ES-I3 Cell Line	embryonic stem cell
43	chr9:13269000-13274800	Weak transcription	NH-A	brain
44	chr9:13269000-13276000	Weak transcription	iPS-18 Cell Line	embryonic stem cell
45	chr9:13269000-13276600	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
46	chr9:13269200-13269800	Weak transcription	Hela-S3	cervix
47	chr9:13269200-13270000	Enhancers	Fetal Lung	lung
48	chr9:13269200-13270200	Enhancers	Brain Anterior Caudate	brain
49	chr9:13269200-13274600	Weak transcription	Osteobl	bone
50	chr9:13269200-13275000	Weak transcription	Psoas Muscle	Psoas

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links