Variant report

Variant	rs9561931
Chromosome Location	chr13:96344934-96344935
allele	A/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

No.	lncRNA name	Chromosome Location	lncRNA alias
1	lnc-CLDN10-4	chr13:96344792-96345080	NONHSAT034770

Extended variants
information (count: 34 )
Associated
traits (count: 0)

rSNPs within LD-proxies of this variant (count:33)

rs_ID	r²[population]
rs12430152	0.82[YRI][hapmap]
rs12583795	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes]
rs12583796	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.83[AFR][1000 genomes];0.89[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs12855055	0.88[AFR][1000 genomes];0.99[AMR][1000 genomes];0.97[EUR][1000 genomes]
rs17885081	0.86[AFR][1000 genomes]
rs3099357	0.81[CHB][hapmap]
rs3099359	0.81[CHB][hapmap]
rs3101570	0.89[YRI][hapmap]
rs34205636	0.81[AMR][1000 genomes]
rs35740456	0.91[AFR][1000 genomes];0.99[AMR][1000 genomes];0.94[EUR][1000 genomes]
rs3886352	0.93[YRI][hapmap];0.86[AFR][1000 genomes]
rs3901894	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.92[AFR][1000 genomes];0.89[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs4409947	0.86[YRI][hapmap]
rs59576762	0.89[AFR][1000 genomes];0.87[AMR][1000 genomes];0.87[EUR][1000 genomes]
rs6492820	0.90[CHB][hapmap]
rs6492821	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.86[AFR][1000 genomes];0.92[AMR][1000 genomes];0.90[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs7316996	0.93[YRI][hapmap];0.82[AFR][1000 genomes]
rs7318892	0.89[YRI][hapmap]
rs7323408	0.83[YRI][hapmap]
rs7331549	0.83[YRI][hapmap]
rs7334552	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.87[AFR][1000 genomes];0.90[AMR][1000 genomes];0.91[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7338266	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.82[ASN][1000 genomes]
rs7983756	0.86[CHB][hapmap]
rs7991405	0.90[YRI][hapmap]
rs7995306	0.81[CEU][hapmap]
rs9302084	0.92[CEU][hapmap];0.95[CHB][hapmap];1.00[JPT][hapmap];0.89[YRI][hapmap];0.92[AFR][1000 genomes];0.91[AMR][1000 genomes];0.92[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs9561935	0.85[CEU][hapmap];0.82[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9561936	0.85[CEU][hapmap];0.83[AMR][1000 genomes];0.82[EUR][1000 genomes]
rs9561939	0.89[CEU][hapmap];1.00[CHB][hapmap];1.00[JPT][hapmap];0.93[YRI][hapmap];0.97[AFR][1000 genomes];1.00[AMR][1000 genomes];0.97[EUR][1000 genomes];0.97[ASN][1000 genomes]
rs9561953	0.81[CEU][hapmap]
rs9584324	0.90[YRI][hapmap]
rs9584326	0.90[JPT][hapmap]
rs9590310	0.82[AFR][1000 genomes]

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	nsv832690	chr13:96330757-96508077	Weak transcription Flanking Active TSS Enhancers ZNF genes & repeats Strong transcription Genic enhancers Active TSS Flanking Bivalent TSS/Enh Bivalent Enhancer Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	11 gene(s)	inside rSNPs	diseases

No data

Chromatin state (count:32 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr13:96331400-96350600	Weak transcription	Aorta	Aorta
2	chr13:96331400-96362200	Weak transcription	HSMM	muscle
3	chr13:96332000-96348000	Weak transcription	Foreskin Melanocyte Primary Cells skin03	Skin
4	chr13:96332400-96360400	Weak transcription	NHDF-Ad	bronchial
5	chr13:96332600-96350200	Weak transcription	Muscle Satellite Cultured Cells	--
6	chr13:96337400-96346400	Weak transcription	Monocytes-CD14+_RO01746	blood
7	chr13:96337400-96347600	Weak transcription	Breast Myoepithelial Primary Cells	Breast
8	chr13:96337400-96350400	Weak transcription	Lung	lung
9	chr13:96337600-96346200	Weak transcription	Foreskin Keratinocyte Primary Cells skin03	Skin
10	chr13:96337600-96347200	Weak transcription	Foreskin Keratinocyte Primary Cells skin02	Skin
11	chr13:96337600-96347800	Weak transcription	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
12	chr13:96337600-96348400	Weak transcription	H1 BMP4 Derived Trophoblast Cultured Cells	ES cell derived
13	chr13:96337600-96350400	Weak transcription	Pancreas	Pancrea
14	chr13:96337600-96350400	Weak transcription	Right Ventricle	heart
15	chr13:96337600-96350400	Weak transcription	Skeletal Muscle Female	skeletal muscle
16	chr13:96337600-96350400	Weak transcription	Small Intestine	intestine
17	chr13:96337600-96356000	Weak transcription	Foreskin Melanocyte Primary Cells skin01	Skin
18	chr13:96337600-96358800	Weak transcription	Primary Natural Killer cells fromperipheralblood	blood
19	chr13:96337600-96360800	Weak transcription	Rectal Mucosa Donor 29	rectum
20	chr13:96337600-96362200	Weak transcription	Rectal Mucosa Donor 31	rectum
21	chr13:96337600-96364200	Weak transcription	Ovary	ovary
22	chr13:96341000-96350600	Weak transcription	H1 Derived Mesenchymal Stem Cells	ES cell derived
23	chr13:96341200-96350400	Weak transcription	Psoas Muscle	Psoas
24	chr13:96341200-96350400	Weak transcription	Right Atrium	heart
25	chr13:96341400-96345000	Weak transcription	Primary neutrophils fromperipheralblood	blood
26	chr13:96342000-96346600	Weak transcription	GM12878-XiMat	blood
27	chr13:96342000-96350400	Weak transcription	Primary T helper 17 cells PMA-I stimulated	--
28	chr13:96342000-96350400	Weak transcription	Primary T killer naive cells fromperipheralblood	blood
29	chr13:96342000-96350600	Weak transcription	Liver	Liver
30	chr13:96342200-96349200	Weak transcription	Primary T helper cells fromperipheralblood	blood
31	chr13:96343400-96347000	Weak transcription	Primary hematopoietic stem cells	blood
32	chr13:96344200-96348200	Weak transcription	hESC Derived CD184+ Endoderm Cultured Cells	ES cell derived

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