Variant report

Variant	rs10821164
Chromosome Location	chr9:96347229-96347230
allele	C/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	Distal block	Cell Line	Cell type
1	chr9:96341833..96343358-chr9:96346773..96348583,2	K562	blood:
2	chr9:96346772..96349327-chr9:96380904..96383527,2	MCF-7	breast:
3	chr9:96338500..96340804-chr9:96346682..96348617,3	K562	blood:

Variant related genes	Relation type
ENSG00000197724	Chromatin interaction

Extended variants
information (count: 23 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:22)

rs_ID	r²[population]
rs10117225	0.85[CHB][hapmap]
rs10123378	0.85[CHB][hapmap]
rs10761238	0.93[ASW][hapmap];0.85[CHB][hapmap];0.81[LWK][hapmap];0.81[MKK][hapmap];1.00[YRI][hapmap];0.87[AFR][1000 genomes]
rs10761239	0.85[CEU][hapmap];1.00[CHB][hapmap];1.00[CHD][hapmap];0.96[GIH][hapmap];1.00[JPT][hapmap];1.00[MEX][hapmap];0.89[TSI][hapmap];0.85[AMR][1000 genomes];0.87[EUR][1000 genomes];0.99[ASN][1000 genomes]
rs10761240	0.85[CHB][hapmap]
rs10761243	0.85[CHB][hapmap]
rs10821165	0.88[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821166	0.92[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];1.00[YRI][hapmap];0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821167	0.84[AFR][1000 genomes];0.96[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10821168	0.85[CHB][hapmap];0.82[MEX][hapmap]
rs10821181	0.85[CHB][hapmap]
rs10992791	0.92[AMR][1000 genomes];0.99[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10992792	0.85[CHB][hapmap]
rs10992797	0.85[CHB][hapmap]
rs10992804	0.89[CHB][hapmap]
rs13294381	0.89[AFR][1000 genomes]
rs1412048	0.85[CHB][hapmap]
rs2398845	0.85[CHB][hapmap]
rs3922729	0.85[AMR][1000 genomes];0.96[EUR][1000 genomes];0.98[ASN][1000 genomes]
rs4568663	0.85[CHB][hapmap]
rs6479496	0.90[AMR][1000 genomes];0.92[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs7857266	0.89[CHB][hapmap]

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

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv824984	chr9:96310933-96375022	Flanking Active TSS Weak transcription Enhancers Strong transcription Genic enhancers Active TSS ZNF genes & repeats Bivalent/Poised TSS Transcr. at gene 5' and 3' Flanking Bivalent TSS/Enh Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA miRNA miRNA target site	18 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs10821164	GADD45G	cis	parietal	SCAN
rs10821164	FAM120AOS	cis	parietal	SCAN

Chromatin state (count:80 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr9:96340400-96348200	Weak transcription	Fetal Kidney	kidney
2	chr9:96340400-96351200	Weak transcription	H1 Derived Neuronal Progenitor Cultured Cells	ES cell derived
3	chr9:96340600-96351600	Weak transcription	Thymus	Thymus
4	chr9:96341000-96347400	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
5	chr9:96341000-96348800	Weak transcription	Primary T cells effector/memory enriched fromperipheralblood	blood
6	chr9:96341200-96347400	Weak transcription	Primary T cells from cord blood	blood
7	chr9:96341200-96351200	Weak transcription	NHDF-Ad	bronchial
8	chr9:96341400-96350200	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
9	chr9:96341400-96356000	Weak transcription	Hela-S3	cervix
10	chr9:96341600-96351600	Weak transcription	Primary T helper naive cells from peripheral blood	blood
11	chr9:96341600-96359600	Weak transcription	Primary T regulatory cells fromperipheralblood	blood
12	chr9:96341800-96362200	Weak transcription	Monocytes-CD14+_RO01746	blood
13	chr9:96342200-96359600	Weak transcription	Primary T helper memory cells from peripheral blood 1	blood
14	chr9:96342600-96347600	Weak transcription	Primary T cells fromperipheralblood	blood
15	chr9:96342600-96357800	Weak transcription	Primary T helper memory cells from peripheral blood 2	blood
16	chr9:96343200-96348000	Weak transcription	Brain Germinal Matrix	brain
17	chr9:96343400-96360600	Weak transcription	Dnd41	blood
18	chr9:96343600-96347400	Weak transcription	Fetal Stomach	stomach
19	chr9:96343600-96347600	Weak transcription	Foreskin Fibroblast Primary Cells skin02	Skin
20	chr9:96343600-96350000	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
21	chr9:96343800-96347400	Weak transcription	IMR90 fetal lung fibroblasts Cell Line	lung
22	chr9:96343800-96348000	Weak transcription	Foreskin Fibroblast Primary Cells skin01	Skin
23	chr9:96343800-96349200	Weak transcription	Colon Smooth Muscle	Colon
24	chr9:96344000-96348400	Weak transcription	Primary mononuclear cells fromperipheralblood	Blood
25	chr9:96344200-96348400	Weak transcription	Primary T helper cells fromperipheralblood	blood
26	chr9:96344600-96348600	Weak transcription	Rectal Smooth Muscle	rectum
27	chr9:96344800-96347400	Weak transcription	Stomach Smooth Muscle	stomach
28	chr9:96344800-96347600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
29	chr9:96344800-96347600	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
30	chr9:96344800-96347600	Weak transcription	Gastric	stomach
31	chr9:96344800-96347600	Weak transcription	Spleen	Spleen
32	chr9:96344800-96347800	Weak transcription	Brain Cingulate Gyrus	brain
33	chr9:96344800-96348000	Weak transcription	Brain Inferior Temporal Lobe	brain
34	chr9:96344800-96348200	Weak transcription	Brain Dorsolateral Prefrontal Cortex	brain
35	chr9:96344800-96348400	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
36	chr9:96344800-96348400	Weak transcription	Brain Angular Gyrus	brain
37	chr9:96344800-96348600	Weak transcription	iPS DF 19.11 Cell Line	embryonic stem cell
38	chr9:96344800-96348600	Weak transcription	Fetal Brain Male	brain
39	chr9:96344800-96349000	Weak transcription	Primary T killer memory cells from peripheral blood	blood
40	chr9:96344800-96356400	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
41	chr9:96345000-96347400	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
42	chr9:96345000-96347400	Weak transcription	Esophagus	oesophagus
43	chr9:96345000-96347400	Weak transcription	Left Ventricle	heart
44	chr9:96345000-96347400	Weak transcription	Ovary	ovary
45	chr9:96345000-96347400	Weak transcription	Pancreas	Pancrea
46	chr9:96345000-96347400	Weak transcription	Psoas Muscle	Psoas
47	chr9:96345000-96347600	Weak transcription	Lung	lung
48	chr9:96345000-96347600	Weak transcription	Right Atrium	heart
49	chr9:96345000-96347600	Weak transcription	Right Ventricle	heart
50	chr9:96345000-96347600	Weak transcription	Skeletal Muscle Female	skeletal muscle

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