Variant report

Variant	rs10996319
Chromosome Location	chr10:53008583-53008584
allele	A/T
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 46 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:43)

rs_ID	r²[population]
rs10490973	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs10490974	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs10490975	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.93[AFR][1000 genomes];1.00[AMR][1000 genomes];0.96[EUR][1000 genomes]
rs10996310	0.94[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996313	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996314	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996317	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996318	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996321	1.00[JPT][hapmap]
rs10996322	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996323	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996325	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996327	1.00[CEU][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996328	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996331	0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs10996357	0.96[EUR][1000 genomes]
rs10996361	0.96[EUR][1000 genomes]
rs10996373	0.82[AFR][1000 genomes]
rs10996376	0.96[EUR][1000 genomes]
rs10996377	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs10996389	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs10996390	0.96[EUR][1000 genomes]
rs10996392	0.96[EUR][1000 genomes]
rs10996397	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs10996438	0.96[EUR][1000 genomes]
rs10996449	0.96[EUR][1000 genomes]
rs10996452	0.96[EUR][1000 genomes]
rs10996455	0.96[EUR][1000 genomes]
rs10996458	0.92[EUR][1000 genomes]
rs12240684	0.96[EUR][1000 genomes]
rs12245444	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs12247775	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs12251510	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12253079	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.88[EUR][1000 genomes]
rs12253122	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs12254957	0.96[EUR][1000 genomes]
rs12259761	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs12262817	1.00[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.96[EUR][1000 genomes]
rs12264019	0.96[EUR][1000 genomes]
rs16915897	0.94[AMR][1000 genomes];0.96[EUR][1000 genomes];1.00[ASN][1000 genomes]
rs61849755	0.96[EUR][1000 genomes]
rs61849756	0.96[EUR][1000 genomes]
rs61852060	0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:3 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1036645	chr10:52804961-53159076	Enhancers Bivalent/Poised TSS Bivalent Enhancer Weak transcription Active TSS Flanking Bivalent TSS/Enh Flanking Active TSS Genic enhancers Strong transcription ZNF genes & repeats	TF binding region CpG island Chromatin interactive region lncRNA miRNA	22 gene(s)	inside rSNPs	diseases
2	esv2757383	chr10:52995974-53015583	Enhancers Weak transcription Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a
3	esv2759750	chr10:52995974-53015583	Weak transcription Enhancers Flanking Active TSS Active TSS Bivalent Enhancer	TF binding region CpG island Chromatin interactive region lncRNA	1 gene(s)	inside rSNPs	n/a

No data

Chromatin state (count:31 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:52992200-53009600	Weak transcription	Stomach Smooth Muscle	stomach
2	chr10:53003600-53010400	Weak transcription	H9 Cell Line	embryonic stem cell
3	chr10:53004800-53010600	Weak transcription	Psoas Muscle	Psoas
4	chr10:53005000-53009800	Weak transcription	Rectal Smooth Muscle	rectum
5	chr10:53005200-53009800	Weak transcription	Skeletal Muscle Male	skeletal muscle
6	chr10:53005400-53010000	Weak transcription	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
7	chr10:53005800-53009800	Weak transcription	Duodenum Smooth Muscle	Duodenum
8	chr10:53006000-53009400	Weak transcription	Skeletal Muscle Female	skeletal muscle
9	chr10:53006000-53010200	Weak transcription	Fetal Muscle Leg	muscle
10	chr10:53006200-53010000	Weak transcription	HUES64 Cell Line	embryonic stem cell
11	chr10:53006200-53015800	Weak transcription	Colon Smooth Muscle	Colon
12	chr10:53006400-53010400	Weak transcription	Ganglion Eminence derived primary cultured neurospheres	brain
13	chr10:53006600-53010200	Weak transcription	H1 Cell Line	embryonic stem cell
14	chr10:53006600-53010400	Weak transcription	Primary hematopoietic stem cells	blood
15	chr10:53006800-53010000	Weak transcription	HUVEC	blood vessel
16	chr10:53006800-53017000	Weak transcription	Aorta	Aorta
17	chr10:53006800-53017600	Weak transcription	HUES6 Cell Line	embryonic stem cell
18	chr10:53007000-53009600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
19	chr10:53007000-53010200	Weak transcription	Sigmoid Colon	Sigmoid Colon
20	chr10:53007000-53010400	Weak transcription	Cortex derived primary cultured neurospheres	brain
21	chr10:53007000-53010600	Weak transcription	ES-I3 Cell Line	embryonic stem cell
22	chr10:53007400-53016600	Weak transcription	hESC Derived CD56+ Ectoderm Cultured Cells	ES cell derived
23	chr10:53007600-53009400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Male	--
24	chr10:53007800-53009400	Weak transcription	Primary hematopoietic stem cells G-CSF-mobilized Female	--
25	chr10:53007800-53009600	Weak transcription	iPS-18 Cell Line	embryonic stem cell
26	chr10:53007800-53009800	Weak transcription	ES-UCSF4 Cell Line	embryonic stem cell
27	chr10:53007800-53010400	Weak transcription	iPS-20b Cell Line	embryonic stem cell
28	chr10:53007800-53012600	Weak transcription	iPS-15b Cell Line	embryonic stem cell
29	chr10:53008000-53010400	Weak transcription	H9 Derived Neuronal Progenitor Cultured Cells	ES cell derived
30	chr10:53008000-53012400	Weak transcription	HUES48 Cell Line	embryonic stem cell
31	chr10:53008000-53012800	Weak transcription	H9 Derived Neuron Cultured Cells	ES cell derived

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