Variant report

Variant	rs35429140
Chromosome Location	chr10:91621471-91621472
allele	C/G
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 13 )
Associated
traits (count: 5 )

rSNPs within LD-proxies of this variant (count:7)

rs_ID	r²[population]
rs11593486	0.95[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs1408583	0.84[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs1998643	0.96[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs34343174	0.85[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs34768430	0.84[AFR][1000 genomes];0.92[EUR][1000 genomes]
rs35663461	0.96[AFR][1000 genomes];0.91[EUR][1000 genomes]
rs7921663	0.93[AFR][1000 genomes];0.92[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv869080	chr10:91498641-91712834	Active TSS Weak transcription Enhancers Flanking Bivalent TSS/Enh Strong transcription Genic enhancers Flanking Active TSS Bivalent Enhancer Bivalent/Poised TSS ZNF genes & repeats Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	10 gene(s)	inside rSNPs	diseases
2	nsv1036581	chr10:91526705-91691536	Enhancers Weak transcription Flanking Bivalent TSS/Enh Strong transcription Flanking Active TSS Active TSS ZNF genes & repeats Bivalent Enhancer Bivalent/Poised TSS Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA miRNA target site	9 gene(s)	inside rSNPs	diseases
3	nsv1043571	chr10:91568555-92036154	Enhancers Weak transcription Flanking Bivalent TSS/Enh ZNF genes & repeats Active TSS Flanking Active TSS Bivalent/Poised TSS Genic enhancers Bivalent Enhancer Transcr. at gene 5' and 3' Strong transcription	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
4	nsv551874	chr10:91570211-92036154	Enhancers Weak transcription Flanking Active TSS Active TSS Flanking Bivalent TSS/Enh Strong transcription Bivalent/Poised TSS Bivalent Enhancer ZNF genes & repeats Genic enhancers Transcr. at gene 5' and 3'	TF binding region CpG island Chromatin interactive region lncRNA	16 gene(s)	inside rSNPs	diseases
5	nsv949678	chr10:91589048-92016474	Flanking Active TSS Weak transcription Enhancers Active TSS Strong transcription Bivalent/Poised TSS Bivalent Enhancer Flanking Bivalent TSS/Enh ZNF genes & repeats Transcr. at gene 5' and 3' Genic enhancers	TF binding region CpG island Chromatin interactive region lncRNA	14 gene(s)	inside rSNPs	diseases
6	nsv895883	chr10:91610601-92195828	Flanking Active TSS Enhancers ZNF genes & repeats Weak transcription Active TSS Bivalent/Poised TSS Strong transcription Bivalent Enhancer Transcr. at gene 5' and 3' Genic enhancers Flanking Bivalent TSS/Enh	TF binding region CpG island Chromatin interactive region lncRNA	12 gene(s)	inside rSNPs	diseases

mRNA abundance (count:5)

SNP	Gene	Cis/trans	Tissue	Source
rs35429140	LINC00865	cis	Nerve Tibial	GTEx
rs35429140	RP11-248C1.3	cis	Artery Tibial	GTEx
rs35429140	LINC00865	cis	Thyroid	GTEx
rs35429140	LINC00865	cis	Artery Tibial	GTEx
rs35429140	LINC00865	cis	Adipose Subcutaneous	GTEx

Chromatin state (count:51 , 50 per page) page: 1 2

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr10:91607000-91621600	Weak transcription	H9 Cell Line	embryonic stem cell
2	chr10:91620200-91622000	Enhancers	Primary B cells from peripheral blood	blood
3	chr10:91620400-91621600	Flanking Active TSS	Osteobl	bone
4	chr10:91620400-91622200	Enhancers	Foreskin Keratinocyte Primary Cells skin03	Skin
5	chr10:91620400-91622400	Enhancers	Cortex derived primary cultured neurospheres	brain
6	chr10:91620600-91621600	Enhancers	Primary T killer naive cells fromperipheralblood	blood
7	chr10:91620600-91622200	Enhancers	ES-I3 Cell Line	embryonic stem cell
8	chr10:91620600-91622200	Flanking Active TSS	Bone Marrow Derived Cultured Mesenchymal Stem Cells	Bone marrow
9	chr10:91620600-91622200	Enhancers	Aorta	Aorta
10	chr10:91620600-91622200	Enhancers	Hela-S3	cervix
11	chr10:91620600-91622400	Enhancers	NH-A	brain
12	chr10:91620600-91622600	Enhancers	Breast variant Human Mammary Epithelial Cells (vHMEC)	Breast
13	chr10:91620600-91622600	Enhancers	HMEC	breast
14	chr10:91620800-91621600	Flanking Active TSS	Adipose Derived Mesenchymal Stem Cell Cultured Cells	ES cell derived
15	chr10:91620800-91621600	Flanking Active TSS	Primary T helper memory cells from peripheral blood 2	blood
16	chr10:91620800-91621800	Enhancers	Primary T helper cells fromperipheralblood	blood
17	chr10:91620800-91622200	Enhancers	Foreskin Keratinocyte Primary Cells skin02	Skin
18	chr10:91620800-91622200	Enhancers	Fetal Intestine Small	intestine
19	chr10:91620800-91622600	Enhancers	hESC Derived CD56+ Mesoderm Cultured Cells	ES cell derived
20	chr10:91621000-91621600	Enhancers	IMR90 fetal lung fibroblasts Cell Line	lung
21	chr10:91621000-91621600	Enhancers	Primary T cells from cord blood	blood
22	chr10:91621000-91621600	Enhancers	Primary T cells fromperipheralblood	blood
23	chr10:91621000-91621600	Enhancers	Primary T regulatory cells fromperipheralblood	blood
24	chr10:91621000-91621600	Enhancers	Primary T killer memory cells from peripheral blood	blood
25	chr10:91621000-91621800	Weak transcription	HUES48 Cell Line	embryonic stem cell
26	chr10:91621000-91621800	Enhancers	Primary B cells from cord blood	blood
27	chr10:91621000-91621800	Enhancers	Primary T cells effector/memory enriched fromperipheralblood	blood
28	chr10:91621000-91621800	Enhancers	Small Intestine	intestine
29	chr10:91621000-91621800	Enhancers	GM12878-XiMat	blood
30	chr10:91621000-91622000	Enhancers	Primary T helper cells PMA-I stimulated	--
31	chr10:91621000-91622000	Enhancers	Primary T helper 17 cells PMA-I stimulated	--
32	chr10:91621000-91622000	Enhancers	Foreskin Fibroblast Primary Cells skin01	Skin
33	chr10:91621000-91622200	Enhancers	HUES6 Cell Line	embryonic stem cell
34	chr10:91621000-91622200	Enhancers	Ganglion Eminence derived primary cultured neurospheres	brain
35	chr10:91621000-91622200	Enhancers	Sigmoid Colon	Sigmoid Colon
36	chr10:91621000-91622200	Enhancers	Stomach Mucosa	stomach
37	chr10:91621000-91622200	Enhancers	NHEK	skin
38	chr10:91621000-91622400	Enhancers	NHLF	lung
39	chr10:91621000-91622800	Enhancers	NHDF-Ad	bronchial
40	chr10:91621200-91621600	Enhancers	Monocytes-CD14+_RO01746	blood
41	chr10:91621200-91621800	Enhancers	Duodenum Mucosa	Duodenum
42	chr10:91621200-91622000	Flanking Active TSS	Mesenchymal Stem Cell Derived Adipocyte Cultured Cells	ES cell derived
43	chr10:91621200-91622000	Enhancers	Primary T helper naive cells fromperipheralblood	blood
44	chr10:91621200-91622200	Enhancers	Dnd41	blood
45	chr10:91621400-91621600	Enhancers	Right Atrium	heart
46	chr10:91621400-91621600	Enhancers	A549	lung
47	chr10:91621400-91621800	Flanking Active TSS	Mesenchymal Stem Cell Derived Chondrocyte Cultured Cells	embryonic stem cell
48	chr10:91621400-91621800	Enhancers	Muscle Satellite Cultured Cells	--
49	chr10:91621400-91622000	Enhancers	iPS-15b Cell Line	embryonic stem cell
50	chr10:91621400-91622000	Enhancers	ES-UCSF4 Cell Line	embryonic stem cell

The 2.0 version of rSNPBase

Variant report

Quick Search:

what's new

Quick links